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============================================================================

                  Welcome to the SIB BLAST Network Service

If results of this search are reported or published, please mention that
the computation was performed at the SIB using the BLAST network service.
The SIB BLAST network service uses a server developed at SIB and the NCBI
BLAST 2 software. It is implemented on hardware provided by HP.

In case of problems, please contact us.

NCBI BLAST program reference [PMID:9254694]:
Altschul S.F., Madden T.L., Schäffer A.A., Zhang J., Zhang Z., Miller W.,
Lipman D.J.  Gapped BLAST and PSI-BLAST: a new generation of protein
database search programs.  Nucleic Acids Res. 25:3389-3402(1997).

============================================================================

Query length: 932 AA
Date run: 2003-05-01 15:06:18 UTC+0100 on sib-blast.unil.ch
Program: NCBI BLASTP 2.2.5 [Nov-16-2002]
Database: XXswissprot Viruses 
           8482 sequences; 3,552,911 total letters
           Swiss-Prot Release 41.6 of 30-Apr-2003


List of potentially matching sequences
Send selected sequences to

Include query sequence

  Db AC     Description                                            Score E-value

 sp P59641 R1AB_CVHSA Replicase polyprotein 1ab (pp1ab) (ORF1AB) ... 1937   0.0
 sp P16342 RRPB_CVMA5 RNA-directed RNA polymerase (EC 2.7.7.48) (... 1281   0.0
 sp P29982 RRPB_CVMJH RNA-directed RNA polymerase (EC 2.7.7.48) (... 1274   0.0
 sp Q05002 R1AB_CVH22 Replicase polyprotein 1ab (pp1ab) (ORF1AB) ... 1150   0.0
 sp P26314 RRPB_IBVB RNA-directed RNA polymerase (ORF1B) (EC 2.7.... 1127   0.0
 sp P18458 RRPB_BEV RNA-directed RNA polymerase (EC 2.7.7.48) (OR...  134 8e-32
 sp P19811 RPOA_EAV POL polyprotein (ORF1A/1B) [Contains: RNA-dir...   42 5e-04
 sp P18479 POLG_ZYMVC Genome polyprotein [Contains: N-terminal pr...   41 9e-04
 sp P18478 POLG_WMV2U Genome polyprotein [Contains: Nuclear inclu...   41 0.001
 sp Q04561 RPOA_LELV POL polyprotein (ORF1A/1B) [Contains: RNA-di...   39 0.003
 sp Q89330 POLG_ZYMVR Genome polyprotein [Contains: N-terminal pr...   39 0.004
 sp O36979 POLG_ZYMVS Genome polyprotein [Contains: N-terminal pr...   37 0.022
 sp Q01500 POLG_PEMVC Genome polyprotein [Contains: N-terminal pr...   37 0.022
 sp Q01901 POLG_PRSVH Genome polyprotein [Contains: N-terminal pr...   35 0.063
 sp Q90069 POLG_SBMVG Genome polyprotein [Contains: N-terminal pr...   34  0.11
 sp P21231 POLG_SBMVN Genome polyprotein [Contains: N-terminal pr...   33  0.31
 sp P18247 POLG_PVYN Genome polyprotein [Contains: N-terminal pro...   32  0.41
 sp Q02963 POLG_PVYHU Genome polyprotein [Contains: N-terminal pr...   32  0.41
 sp P17699 RRPO_ROTPG RNA-directed RNA polymerase subunit VP1 (EC...   32  0.54
 sp Q65399 POLG_BCMVN Genome polyprotein [Contains: N-terminal pr...   32  0.54
 sp P17468 RRPO_ROTBR RNA-directed RNA polymerase subunit VP1 (EC...   31  0.92
 sp P21615 RRPO_ROTBU RNA-directed RNA polymerase subunit VP1 (EC...   31   1.2
 sp P22678 RRPO_ROTS1 RNA-directed RNA polymerase subunit VP1 (EC...   30   1.6
 sp P89876 POLG_LMVE Genome polyprotein [Contains: N-terminal pro...   30   1.6
 sp P17766 POLG_PPVNA Genome polyprotein [Contains: N-terminal pr...   30   2.7
 sp P03303 POLG_HRV14 Genome polyprotein [Contains: Coat proteins...   30   2.7
 sp P03132 VNCA_AAV2 DNA replication protein (Noncapsid protein) ...   29   3.5
 sp P09814 POLG_TVMV Genome polyprotein [Contains: N-terminal pro...   29   3.5
 sp P89509 POLG_TUMVJ Genome polyprotein [Contains: N-terminal pr...   29   4.5
 sp P04517 POLG_TEV Genome polyprotein [Contains: N-terminal prot...   29   4.5
 sp Q84934 POLG_PPVSK Genome polyprotein [Contains: N-terminal pr...   29   4.5
 sp P31999 POLG_LMV0 Genome polyprotein [Contains: N-terminal pro...   29   4.5
 sp Q02597 POLG_TUMVQ Genome polyprotein [Contains: N-terminal pr...   28   5.9
 sp P17767 POLG_PPVRA Genome polyprotein [Contains: N-terminal pr...   28   7.8
 sp P13529 POLG_PPVD Genome polyprotein [Contains: N-terminal pro...   28   7.8

Alignments
spP59641
R1AB_CVHSA
Replicase polyprotein 1ab (pp1ab) (ORF1AB) [Includes: Replicase
polyprotein 1a (pp1a) (ORF1A)] [Contains: Leader protein;
p65 homolog; Papain-like proteinase (EC 3.4.24.-) (NSP1);
3C-like proteinase (EC 3.4.24.-) (3CL-PRO) (NSP2); HD2
(NSP3); NSP4; NSP5; NSP6; Growth factor-like (NSP7);
RNA-directed RNA polymerase (EC 2.7.7.48) (RdRp) (NSP9);
Helicase (Hel) (NSP10); NSP11; NSP12; NSP13] [Human
coronavirus (strain SARS) (HCoV-SARS)]
7073 AA
align
 Score = 1937 bits (5017), Expect = 0.0
 Identities = 932/932 (100%), Positives = 932/932 (100%)

Query: 1    SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD 60
            SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD
Sbjct: 4370 SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD 4429

Query: 61   EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT 120
            EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT
Sbjct: 4430 EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT 4489

Query: 121  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE 180
            KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct: 4490 KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE 4549

Query: 181  RVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL 240
            RVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL
Sbjct: 4550 RVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL 4609

Query: 241  LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN 300
            LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN
Sbjct: 4610 LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN 4669

Query: 301  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN 360
            CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct: 4670 CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN 4729

Query: 361  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY 420
            LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct: 4730 LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY 4789

Query: 421  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF 480
            DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct: 4790 DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF 4849

Query: 481  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT 540
            DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct: 4850 DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT 4909

Query: 541  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN 600
            QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct: 4910 QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN 4969

Query: 601  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECA 660
            MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECA
Sbjct: 4970 MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECA 5029

Query: 661  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV 720
            QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct: 5030 QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV 5089

Query: 721  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK 780
            RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK
Sbjct: 5090 RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK 5149

Query: 781  NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA 840
            NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct: 5150 NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA 5209

Query: 841  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML 900
            GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct: 5210 GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML 5269

Query: 901  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ 932
            DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct: 5270 DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ 5301


spP16342
RRPB_CVMA5
RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [F2] [Murine
coronavirus MHV (strain A59)]
2733 AA
align
 Score = 1281 bits (3316), Expect = 0.0
 Identities = 612/924 (66%), Positives = 737/924 (79%), Gaps = 5/924 (0%)

Query: 10  RVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDS 68
           R+ G S  ARL PC +G  TDV  RAFDI N   AG   + K NCCRFQ  DE+GN LD 
Sbjct: 20  RIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGNKLDK 79

Query: 69  YFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLV 128
           +FVVKR  +  Y  E+  Y L K+C  VA H+FF F V+G  VPHI R+ L+K+TM DL 
Sbjct: 80  FFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTMLDLC 139

Query: 129 YALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLK 188
           YALRHFD  +C TLKEIL+TY  C++ YF KKDWYDFVENPDI+ VY  LG    ++LL 
Sbjct: 140 YALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNRALLN 199

Query: 189 TVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLT 248
           T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+  PGCGV + DSYYS +MP+LT+ 
Sbjct: 200 TAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPMLTMC 259

Query: 249 RALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCIL 308
            AL +E  ++    +    +DL++YDFT+ +L LF +YFK+W  TYHPN   C DDRCI+
Sbjct: 260 HALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDDRCII 315

Query: 309 HCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSF 368
           HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  RLS 
Sbjct: 316 HCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYRLSL 375

Query: 369 KELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGF 428
           K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +SKG 
Sbjct: 376 KDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILSKGL 435

Query: 429 FKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCI 488
            KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+GGCI
Sbjct: 436 LKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYEGGCI 495

Query: 489 NANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAI 548
            A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKYAI
Sbjct: 496 PATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKYAI 555

Query: 549 SAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSD 608
           SAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ +  D
Sbjct: 556 SAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLIKD 615

Query: 609 VETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVM 668
           V++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE+VM
Sbjct: 616 VDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSEIVM 675

Query: 669 CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLY 728
           CGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ RLY
Sbjct: 676 CGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKRLY 735

Query: 729 ECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYY 788
             +YR   VD  FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I  F+ VLYY
Sbjct: 736 SNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQVLYY 795

Query: 789 QNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV 848
           QNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFVDD++
Sbjct: 796 QNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVDDLL 855

Query: 849 KTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLT 908
           KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +LD YSV+L+
Sbjct: 856 KTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSVILS 915

Query: 909 NDNTSRYWEPEFYEAMYTPHTVLQ 932
             +  ++ +  FY+ MY    VLQ
Sbjct: 916 TCDGQKFTDETFYKNMYLRSAVLQ 939


spP29982
RRPB_CVMJH
RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [Murine
coronavirus MHV (strain JHM)]
2731 AA
align
 Score = 1274 bits (3298), Expect = 0.0
 Identities = 611/927 (65%), Positives = 734/927 (79%), Gaps = 5/927 (0%)

Query: 7   FLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 65
           F  RV G S  ARL PC +G  TDV  RAFDI N   AG   + K NC RFQ  DEEGN 
Sbjct: 17  FFKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCFRFQRVDEEGNK 76

Query: 66  LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 125
           LD +FVVKR  +  Y  E+  Y L KDC  VA H+FF F V+G  VPHI R+ L+K+TM 
Sbjct: 77  LDKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTML 136

Query: 126 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 185
           DL YALRHFD  +C TLKEIL+TY  CD+ YF KKDWYDFVENPDI+ VY  LG    ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKLGPIFNRA 196

Query: 186 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 245
           LL T  F D + +AG+VGVLTLDNQDL G WYDFGDFV+  P CGV + DSYYS +MP+L
Sbjct: 197 LLNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYYSYMMPML 256

Query: 246 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 305
           T+  AL +E  ++    +    +DL++YDFT+ +L LF++YFK+W  TYHPN   C DDR
Sbjct: 257 TMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFNKYFKHWSMTYHPNTSECEDDR 312

Query: 306 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 365
           CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372

Query: 366 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 425
           LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432

Query: 426 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 485
           KG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFVVEVV+KYF+ Y+G
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNKYFEIYEG 492

Query: 486 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 545
           GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLK 552

Query: 546 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 605
           YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612

Query: 606 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 665
             DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVL E
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLGE 672

Query: 666 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 725
           +VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ 
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732

Query: 726 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 785
           RLY  +YR   VD  FV E+Y +L KHFSM+ILSDD VVCYNS +A++G +A+I +F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIANISDFQQV 792

Query: 786 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 845
           LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852

Query: 846 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 905
           D++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +LD  SV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSISV 912

Query: 906 MLTNDNTSRYWEPEFYEAMYTPHTVLQ 932
           +L+  +  ++ +  FY+ MY    V+Q
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVMQ 939


spQ05002
R1AB_CVH22
Replicase polyprotein 1ab (pp1ab) (ORF1AB) [Includes: Replicase
polyprotein 1a (pp1a) (ORF1A)] [Contains: Protein p9;
Papain-like proteinase 1 (EC 3.4.24.-); Papain-like
proteinase 2 (EC 3.4.24.-); 3C-like proteinase (EC
3.4.24.-) (3CL-PRO); RNA-directed RNA polymerase (EC
2.7.7.48) (RdRp); Helicase (Hel)] [Human coronavirus
(strain 229E) (HCoV-229E)]
6758 AA
align
 Score = 1150 bits (2974), Expect = 0.0
 Identities = 546/929 (58%), Positives = 695/929 (74%), Gaps = 6/929 (0%)

Query: 5    STFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGN 64
            +++LNRV G SAARL PC  GT  D   RAFD+YN+  +   K LK+NC RF+  D++  
Sbjct: 4072 NSYLNRVRGSSAARLEPCN-GTDIDYCVRAFDVYNKDASFIGKNLKSNCVRFKNVDKD-- 4128

Query: 65   LLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTM 124
              D++++VKR   S   HE+++YNL+K C AVA HDFF +     +  ++SRQ LTKYTM
Sbjct: 4129 --DAFYIVKRCIKSVMDHEQSMYNLLKGCNAVAKHDFFTWHEGRTIYGNVSRQDLTKYTM 4186

Query: 125  ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ 184
             DL +ALR+FDE +C+  KEILV   CC  DYF  K+W+D +EN DI RVYA LG+ V  
Sbjct: 4187 MDLCFALRNFDEKDCEVFKEILVLTGCCSTDYFEMKNWFDPIENEDIHRVYAALGKVVAN 4246

Query: 185  SLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPI 244
            ++LK V FCD M   G+VGVLTLDNQDLNGN+YDFGDFV   PG G+P   SYYS +MP+
Sbjct: 4247 AMLKCVAFCDEMVLKGVVGVLTLDNQDLNGNFYDFGDFVLCPPGMGIPYCTSYYSYMMPV 4306

Query: 245  LTLTRALAAESHMDADLAKPLIK-WDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLD 303
            + +T  LA+E  M +D+     K +DLLKYDFTE +  LF++YFKYW Q YHP+C++C D
Sbjct: 4307 MGMTNCLASECFMKSDIFGQDFKTFDLLKYDFTEHKEVLFNKYFKYWGQDYHPDCVDCHD 4366

Query: 304  DRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHS 363
            + CILHC+NFN LF+T  P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN HS
Sbjct: 4367 EMCILHCSNFNTLFATTIPNTAFGPLCRKVFIDGVPVVATAGYHFKQLGLVWNKDVNTHS 4426

Query: 364  SRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFA 423
            +RL+  ELL +  DP +  AS   L+DKRT CFSVAAL+  +  QTVKPG+FNK+FYDF 
Sbjct: 4427 TRLTITELLQFVTDPTLIVASSPALVDKRTVCFSVAALSTGLTSQTVKPGHFNKEFYDFL 4486

Query: 424  VSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCY 483
             S+GFF EGS + LKHFFF Q G+AAI D+DYYRYN PTM DI Q     +V  +YFDCY
Sbjct: 4487 RSQGFFDEGSELTLKHFFFTQKGDAAIKDFDYYRYNRPTMLDIGQARVAYQVAARYFDCY 4546

Query: 484  DGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMN 543
            +GGCI + +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDA+F+ TKRN++PT+TQ+N
Sbjct: 4547 EGGCITSREVVVTNLNKSAGWPLNKFGKAGLYYESISYEEQDAIFSLTKRNILPTMTQLN 4606

Query: 544  LKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLK 603
            LKYAIS K RARTV GVS+ +TMT RQFHQK LKSI ATR ATVVIGT+KFYGGW NMLK
Sbjct: 4607 LKYAISGKERARTVGGVSLLATMTTRQFHQKCLKSIVATRNATVVIGTTKFYGGWDNMLK 4666

Query: 604  TVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVL 663
             + +DV+ P LMGWDYPKCDRAMP+M+R++++++L  KH TCC  S +FYRL+NE AQVL
Sbjct: 4667 NLMADVDDPKLMGWDYPKCDRAMPSMIRMLSAMILGSKHVTCCTASDKFYRLSNELAQVL 4726

Query: 664  SEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL 723
            +E+V   G  Y KPGGT+SGDATTAYANSVFNI QAV++N+N +LS + +   +  V+ L
Sbjct: 4727 TEVVYSNGGFYFKPGGTTSGDATTAYANSVFNIFQAVSSNINCVLSVNSSNCNNFNVKKL 4786

Query: 724  QHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFK 783
            Q +LY+  YRN +VD  FVD+FY YL+KHFSMMILSDD+VVCYN  YA  G +A I  FK
Sbjct: 4787 QRQLYDNCYRNSNVDESFVDDFYGYLQKHFSMMILSDDSVVCYNKTYAGLGYIADISAFK 4846

Query: 784  AVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCF 843
            A LYYQN VFMS AKCWTE DL+ GPHEFCSQHTM +   +   YLPYPDPSRI+ AG F
Sbjct: 4847 ATLYYQNGVFMSTAKCWTEEDLSIGPHEFCSQHTMQIVDENGKYYLPYPDPSRIISAGVF 4906

Query: 844  VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMY 903
            VDDI KTD  +++ER+VSLAIDAYPL+KHP  EY  VF+  L +++ L+  L   +L+ +
Sbjct: 4907 VDDITKTDAVILLERYVSLAIDAYPLSKHPKPEYRKVFYALLDWVKHLNKTLNEGVLESF 4966

Query: 904  SVMLTNDNTSRYWEPEFYEAMYTPHTVLQ 932
            SV L +++ S++W+  FY +MY   TVLQ
Sbjct: 4967 SVTLLDEHESKFWDESFYASMYEKSTVLQ 4995


spP26314
RRPB_IBVB
RNA-directed RNA polymerase (ORF1B) (EC 2.7.7.48) [F2] [Avian
infectious bronchitis virus (strain Beaudette) (IBV)]
2652 AA
align
 Score = 1127 bits (2915), Expect = 0.0
 Identities = 556/892 (62%), Positives = 675/892 (75%), Gaps = 13/892 (1%)

Query: 49  LKTNCCRFQE--KDEEGNL--LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKF 104
           LK NC RFQE    E+GNL  LDSYFVVK+ T SNY+HE++ Y  +K     A HDFF F
Sbjct: 5   LKRNCARFQELRDTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVF 63

Query: 105 RVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDD----YFNKK 160
             +   + +ISRQRLTKYTM D  YALRHFD  +C+ LKEILVTY C +D     +   K
Sbjct: 64  NKN---IYNISRQRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENK 120

Query: 161 DWYDFVENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFG 220
           DWYD +EN     + A +G  VR++LL  ++F + M + G VGV+TLDNQDLNG +YDFG
Sbjct: 121 DWYDPIENSKYYVMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFG 180

Query: 221 DFVQVAPGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERL 280
           DF + APG GVP+ D+YYS +MPI+ +T ALA E + + D+ K    +DLLKYD+TEE+ 
Sbjct: 181 DFQKTAPGAGVPVFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQ 240

Query: 281 CLFDRYFKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPF 340
            LF +YFKYWDQ YHPNC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF
Sbjct: 241 ELFQKYFKYWDQEYHPNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPF 300

Query: 341 VVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAA 400
           + + GYH +ELGV+ NQD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV A
Sbjct: 301 IATCGYHSKELGVIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCA 360

Query: 401 LTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNL 460
           LT+ +  QTVKPG+FNKDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN 
Sbjct: 361 LTSGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNR 420

Query: 461 PTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMS 520
           PTM DI QLLF +EV  KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS
Sbjct: 421 PTMFDICQLLFCLEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MS 479

Query: 521 YEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIA 580
            E+QD LF  TK+NV+PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI 
Sbjct: 480 LEEQDQLFEITKKNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIV 539

Query: 581 ATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLAR 640
            TR A+VVIGT+KFYGGW NML+ +   VE P LMGWDYPKCDRAMPN+LRI ASLVLAR
Sbjct: 540 NTRNASVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLAR 599

Query: 641 KHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAV 700
           KH  CC+ S R YRL NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA 
Sbjct: 600 KHTNCCSWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQAT 659

Query: 701 TANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSD 760
           +ANV  LLS     I    +++LQ+ LY+ +YR  + D  FV++FY+YL K+FS+MILSD
Sbjct: 660 SANVARLLSVITRDIVYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSD 719

Query: 761 DAVVCYNSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLV 820
           D VVCYN+  A QGLVA I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV
Sbjct: 720 DGVVCYNNTLAKQGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLV 779

Query: 821 KQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADV 880
           +   +  YLPYPDPSRILGA  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  V
Sbjct: 780 EVDGEPKYLPYPDPSRILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKV 839

Query: 881 FHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ 932
           F + L YIRKL+ EL+ +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct: 840 FFVLLAYIRKLYQELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ 891


spP18458
RRPB_BEV
RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [POL] [Berne
virus (BEV)]
2291 AA
align
 Score =  134 bits (337), Expect = 8e-32
 Identities = 119/485 (24%), Positives = 223/485 (45%), Gaps = 38/485 (7%)

Query: 419 FYDFAVSKGFFKEGSSV--ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVV 476
           FYD  + +     G       K+F++  +   A++D  YY Y        + L  V + +
Sbjct: 343 FYDVGLCQELTDAGVDCGEAFKYFYYLSNPAGALADVCYYDYQGTGFYSPKLLAGVYDFM 402

Query: 477 DKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKAR-LYYDSMSYEDQDALFAYTKRNV 535
            +  +CY    IN          + +    N  G  +   Y ++  E+   LF Y ++  
Sbjct: 403 KRVTECYR---INERFTYEQAKPRKSSMGINITGYQQDAVYRALGPENIARLFEYAQKAP 459

Query: 536 IPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKL---LKSIAATRGATVVIGTS 592
           +P  T++  K+A+SAK RARTV+  S  ++   R  H+ +   +  +A   G   +IG S
Sbjct: 460 LPFCTKIITKFALSAKARARTVSSCSFIASTIFRFAHKPVTSKMVEVAQNSGGFCLIGVS 519

Query: 593 KFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRF 652
           K+   +   LK  Y  +E   + G DY KCDR  P   R + + +L            + 
Sbjct: 520 KYGLKFSKFLKDKYGAIEGFDVFGSDYTKCDRTFPLSFRALTAALLYELGEW----DEKS 575

Query: 653 YRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS--T 710
           +   NE    + + ++C G L  KPGGTSSGDATTA++N+ +N           +LS  +
Sbjct: 576 WLYLNEVNSYMLDTMLCDGMLLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDLS 635

Query: 711 DGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNY 770
           +GNK+    +R   H  Y     +  V +  +++ +   + ++ +  LSDD+ + ++   
Sbjct: 636 EGNKV----MRIAAHNAYTT--GDYQVFNTLLEDQF---QTNYFLNFLSDDSFI-FSKPE 685

Query: 771 AAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGP-HEFCSQHTMLVKQGDDYVYL 829
           A +  + + +NF   L    +  + + K W+    TKG   EFCS H  ++K   +Y +L
Sbjct: 686 ALK--IFTCENFSNKLQTILHTKVDQTKSWS----TKGHIEEFCSAH--IIKTDGEYHFL 737

Query: 830 PYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIR 889
             P   R+L +   +D +  +D  +   RFV++  ++   +++  + +  +F ++L  ++
Sbjct: 738 --PSRGRLLASLLILDKL--SDVDIYYMRFVAILCESAVYSRYQPEFFNGLFQVFLDKVQ 793

Query: 890 KLHDE 894
           +   +
Sbjct: 794 QFRKD 798


 Score = 41.2 bits (95), Expect = 9e-04
 Identities = 48/191 (25%), Positives = 80/191 (41%), Gaps = 38/191 (19%)

Query: 36  DIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSYFVVKR-HTMSNYQHEETIYNLVKDCP 94
           D+  E  AG  K  K+N    + + +        F++KR    S +   +T +      P
Sbjct: 31  DLATEYNAGIVKVNKSNTHSVEYQSKR-------FMIKRVKDQSEFALAKTAF-----LP 78

Query: 95  AVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD 154
           ++  H   K   +  ++    R   +++++ DLVYA+   D+   D L E    +N   D
Sbjct: 79  SIIPHHMEKQNGEWFLI----RGPTSQWSLGDLVYAIWLGDQ---DYLSECGFVFNPSRD 131

Query: 155 DYFNKKDWYDFVEN---PDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQD 211
           ++ +  +   F+ N   P IL             +   V+ C       +   LTLDN D
Sbjct: 132 EFLDDANQRSFLANLLEPAILNF---------SHIYWQVKMCK------VPYKLTLDNVD 176

Query: 212 LNGNWYDFGDF 222
           LNG  YDFGD+
Sbjct: 177 LNGQLYDFGDY 187


spP19811
RPOA_EAV
POL polyprotein (ORF1A/1B) [Contains: RNA-directed RNA polymerase (EC
2.7.7.48); Helicase; Protease (EC 3.4.21.-)] [POL]
[Equine arteritis virus (EAV)]
3175 AA
align
 Score = 42.0 bits (97), Expect = 5e-04
 Identities = 55/259 (21%), Positives = 101/259 (38%), Gaps = 56/259 (21%)

Query: 525  DALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS--------ICSTMTNRQFHQKLL 576
            D + + + ++ + T T    K    +K + R++ G +         C +     F +   
Sbjct: 2037 DDMVSQSMKSNLQTATMATCKRQYCSKYKIRSILGTNNYIGLGLRACLSGVTAAFQK--- 2093

Query: 577  KSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETP--HLMGWDYPKCDRAMPNMLRIMA 634
               A   G+ + +G SKF              +  P  + +  D   CDR+ P ++R  A
Sbjct: 2094 ---AGKDGSPIYLGKSKF------------DPIPAPDKYCLETDLESCDRSTPALVRWFA 2138

Query: 635  SLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVF 694
            +       N    L+ +   + +       ++V+ G   + K GG SSGD  T+ +N+++
Sbjct: 2139 T-------NLIFELAGQPELVHSYVLNCCHDLVVAGSVAFTKRGGLSSGDPITSISNTIY 2191

Query: 695  NICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFS 754
            ++       +   L     +IA+KY+               D   E  D F     K+  
Sbjct: 2192 SLVLYTQHMLLCGLEGYFPEIAEKYL---------------DGSLELRDMF-----KYVR 2231

Query: 755  MMILSDDAVVCY-NSNYAA 772
            + I SDD V+   N +YAA
Sbjct: 2232 VYIYSDDVVLTTPNQHYAA 2250


spP18479
POLG_ZYMVC
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Zucchini yellow mosaic
virus (strain California) (ZYMV)]
3080 AA
align
 Score = 41.2 bits (95), Expect = 9e-04
 Identities = 56/265 (21%), Positives = 109/265 (41%), Gaps = 40/265 (15%)

Query: 454  DYYRYNLPT---MCDIRQLLFVVEVVDKY---FDCYDGGCINANQVIVNNLDKSAGFPFN 507
            D+++YN P      D  + L  V+ V +    F+  +   I   + I N+L+  A     
Sbjct: 2356 DFFKYNKPVTVNQLDHDKFLGAVDGVIRMMCDFEFNECRFITDPEEIYNSLNMKAAIGAQ 2415

Query: 508  KWGKARLYYDSMSYEDQDAL-FAYTKR--NVIPTITQMNLKYAISAKNRAR--------- 555
              GK + Y++ +   D++ L F   +R  N    +   +LK  +    + R         
Sbjct: 2416 YRGKKKEYFEGLDDFDRERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVRANKTRTFTA 2475

Query: 556  ----TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                T+ G  +C    N +F++K LK           +G +KFYGGW  +++++      
Sbjct: 2476 APIDTLLGAKVCVDDFNNEFYRKNLK-------CPWTVGMTKFYGGWDKLMRSLPD---- 2524

Query: 612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
                GW Y   D +    ++   + + VL  +     +       L N  A+++   ++ 
Sbjct: 2525 ----GWLYCHADGSQFDSSLTPALLNAVLIIRSFYMEDWWVGQEMLENLYAEIVYTPILA 2580

Query: 670  -GGSLYVKPGGTSSGDATTAYANSV 693
              G+++ K  G +SG  +T   N++
Sbjct: 2581 PDGTIFKKFRGNNSGQPSTVVDNTL 2605


spP18478
POLG_WMV2U
Genome polyprotein [Contains: Nuclear inclusion protein A (NI-A)
(NIA) (EC 3.4.22.44) (49 kDa proteinase) (49 kDa-Pro);
Nuclear inclusion protein B (NI-B) (NIB) (RNA-directed
RNA polymerase) (EC 2.7.7.48); Coat protein (CP)]
(Fragment) [Watermelon mosaic virus II (isolate USA)]
1016 AA
align
 Score = 40.8 bits (94), Expect = 0.001
 Identities = 59/268 (22%), Positives = 109/268 (40%), Gaps = 46/268 (17%)

Query: 454 DYYRYNLPTMC---DIRQLLFVVE-VVDKYFDCYDGGCINANQV--IVNNLDKSAGFPFN 507
           D+++YN P +    D       VE V+    D     C+       I  +L+  A     
Sbjct: 290 DFFKYNKPVVLNEVDFNAFEKAVEGVITMMVDFEFAECLFVTDPDEIYGSLNMKAAVGAQ 349

Query: 508 KWGKARLYYDSM-SYEDQDALFAYTKR--NVIPTITQMNLKYAISA-----KNRART--- 556
             GK + Y+  M S++ +  L+   +R  N    I   +LK  +        N+ RT   
Sbjct: 350 YKGKKQDYFSGMDSFDKERLLYLSCERLFNGEKGIWNGSLKAELRPIEKVQANKTRTFTA 409

Query: 557 -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                + G  +C    N QF+   LK           +G +KFYGGW  +++++      
Sbjct: 410 APLDTLLGAKVCVDDFNNQFYSFNLK-------CPWTVGMTKFYGGWDKLMRSLPD---- 458

Query: 612 PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFY---RLANECAQVLSEM 666
               GW Y   D +    ++  ++ + VL+ +   CC +   +     L N  A+++   
Sbjct: 459 ----GWTYCHADGSQFDSSLTPLLLNAVLSIR---CCFMEDWWVGREMLENLYAEIVYTP 511

Query: 667 VMC-GGSLYVKPGGTSSGDATTAYANSV 693
           ++   G+++ K  G +SG  +T   N++
Sbjct: 512 ILAPDGTIFKKFRGNNSGQPSTVVDNTL 539


spQ04561
RPOA_LELV
POL polyprotein (ORF1A/1B) [Contains: RNA-directed RNA polymerase (EC
2.7.7.48); Helicase; Protease (EC 3.4.21.-)] [POL]
[Lelystad virus (LV) (Porcine reproductive and
respiratory syndrome virus)]
3859 AA
align
 Score = 39.3 bits (90), Expect = 0.003
 Identities = 55/258 (21%), Positives = 97/258 (37%), Gaps = 56/258 (21%)

Query: 517  DSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQ------ 570
            D  S  + D + A   +    T+T   LK    +K + RT+ G +    + +R       
Sbjct: 2700 DVQSIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTILGTNNFIALAHRSALSGVT 2759

Query: 571  --FHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPN 628
              F +K  KS        + +G +KF        K ++  V    L   D   CDR+ P 
Sbjct: 2760 QAFMKKAWKS-------PIALGKNKF--------KELHCTVAGRCLEA-DLASCDRSTPA 2803

Query: 629  MLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTA 688
            ++R   +       N    L+     L +       ++V      + K GG SSGD  T+
Sbjct: 2804 IVRWFVA-------NLLYELAGCEEYLPSYVLNCCHDLVATQDGAFTKRGGLSSGDPVTS 2856

Query: 689  YANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAY 748
             +N+V+++                       V   QH +   L    ++  +F++E   +
Sbjct: 2857 VSNTVYSL-----------------------VIYAQHMVLSALKMGHEIGLKFLEEQLKF 2893

Query: 749  --LRKHFSMMILSDDAVV 764
              L +   M++ SDD V+
Sbjct: 2894 EDLLEIQPMLVYSDDLVL 2911


spQ89330
POLG_ZYMVR
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Zucchini yellow mosaic
virus (strain Reunion Island) (ZYMV)]
3083 AA
align
 Score = 38.9 bits (89), Expect = 0.004
 Identities = 54/265 (20%), Positives = 105/265 (39%), Gaps = 40/265 (15%)

Query: 454  DYYRYNLPTMCDIRQLLFVVEVVDKY------FDCYDGGCINANQVIVNNLDKSAGFPFN 507
            D+++YN P + +       +E VD        F+  +   I   + I ++L+  A     
Sbjct: 2359 DFFKYNKPVIVNQLDHDKFLEAVDGVIRMMCDFEFNECRFITDPEEIYSSLNMKAAIGAQ 2418

Query: 508  KWGKARLYYDSMSYEDQDAL-FAYTKR--NVIPTITQMNLKYAISAKNRAR--------- 555
              GK + Y++ +   D + L F   +R  N    +   +LK  +    + +         
Sbjct: 2419 YRGKKKEYFEGLDNFDMERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVQANKTRTFTA 2478

Query: 556  ----TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                T+ G  +C    N +F+ K LK           +G SKFYGGW  +++ +      
Sbjct: 2479 APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMSKFYGGWDKLMRALPD---- 2527

Query: 612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
                GW Y   D +    ++   + + VL  +     +       L N  A+++   ++ 
Sbjct: 2528 ----GWLYCHADGSQFDSSLTPALLNAVLIIRSFYMEDWWVGQEMLENLYAEIVYTPILA 2583

Query: 670  -GGSLYVKPGGTSSGDATTAYANSV 693
              G+++ K  G +SG  +T   N++
Sbjct: 2584 PDGTIFKKFRGNNSGQPSTVVDNTL 2608


spO36979
POLG_ZYMVS
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Zucchini yellow mosaic
virus (strain Singapore) (ZYMV)]
3083 AA
align
 Score = 36.6 bits (83), Expect = 0.022
 Identities = 56/265 (21%), Positives = 108/265 (40%), Gaps = 40/265 (15%)

Query: 454  DYYRYNLPTMC---DIRQLLFVVEVVDKY---FDCYDGGCINANQVIVNNLDKSAGFPFN 507
            D+++YN P +    D  + L  V  V +    F+  +   I   + I ++L+  A     
Sbjct: 2359 DFFKYNKPVVVNQLDHDKFLGAVNGVIRMMCDFEFNECRFITDPEEIYDSLNMKAAIGAQ 2418

Query: 508  KWGKARLYYDSMSYEDQDAL-FAYTKR--NVIPTITQMNLKYAISAKNRAR--------- 555
              GK + Y++ +   D++ L F   +R  N    +   +LK  +    + +         
Sbjct: 2419 YRGKKKEYFEGLDNFDRERLLFQSCERLFNGHKGLWNGSLKAELRPLEKVQANKTRTFTA 2478

Query: 556  ----TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                T+ G  +C    N +F+ K LK           +G +KFYGGW  +++      E 
Sbjct: 2479 APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMTKFYGGWDKLMR------EL 2525

Query: 612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
            P   GW Y   D +    ++   + + VL  +     +       L N  A+++   ++ 
Sbjct: 2526 PD--GWLYCHADGSQFDSSLTPALLNAVLIIRSFYMEDWWVGQEMLENLYAEIVYTPILA 2583

Query: 670  -GGSLYVKPGGTSSGDATTAYANSV 693
              G+++ K  G +SG  +T   N++
Sbjct: 2584 PDGTIFKKFRGNNSGQPSTVVDNTL 2608


spQ01500
POLG_PEMVC
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Pepper mottle virus
(California isolate) (PeMV) (PepMoV C)]
3068 AA
align
 Score = 36.6 bits (83), Expect = 0.022
 Identities = 45/204 (22%), Positives = 82/204 (40%), Gaps = 36/204 (17%)

Query: 510  GKARLYYDSMSYED------QDALFAYTKRNVI---PTITQMNLKYAISAKNRART---- 556
            GK + Y++  + ED      Q  L  YT +  +       ++  K  I A N+ RT    
Sbjct: 2410 GKKKEYFEKFTTEDKAEILRQSCLRLYTGKLGVWEWALKAELRSKEKIEA-NKTRTFTAA 2468

Query: 557  ----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETP 612
                + G  +C    N QF+ K ++           +G +KFYGGW  +L  + +     
Sbjct: 2469 PIDTLLGGKVCVDDLNNQFYSKNIE-------CCWTVGMTKFYGGWDKLLTALPA----- 2516

Query: 613  HLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC- 669
               GW Y   D +    ++   + + VL  ++    +    +  L N   +++   +   
Sbjct: 2517 ---GWIYCDADGSQFDSSLTPYLINAVLTIRYAFMEDWDIGYKMLQNLYTEIIYTPISTP 2573

Query: 670  GGSLYVKPGGTSSGDATTAYANSV 693
             G++  K  G +SG  +T   NS+
Sbjct: 2574 DGTIVKKFRGNNSGQPSTVVDNSL 2597


spQ01901
POLG_PRSVH
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Papaya ringspot virus
(strain P / mutant HA)]
3344 AA
align
 Score = 35.0 bits (79), Expect = 0.063
 Identities = 41/173 (23%), Positives = 72/173 (41%), Gaps = 37/173 (21%)

Query: 472  VVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT 531
            V+E+++ + +C +   I  ++VI+  L+  A       GK R Y++  + E + AL   +
Sbjct: 2616 VIELLNDH-ECPELEYITDSEVIIQALNMDAAVGALYTGKKRKYFEGSTVEHRQALVRKS 2674

Query: 532  -------KRNVIPTITQMNLKYA---ISAKNRARTVA------GVSICSTMTNRQFHQKL 575
                   +  V     +  L+ A   ++ K R+ T A      G  +C    N  F+ K 
Sbjct: 2675 CERLYEGRMGVWNGSLKAELRPAEKVLAKKTRSFTAAPLDTLLGAKVCVDDFNNWFYSKN 2734

Query: 576  LKSIAATRGATVVIGTSKFYGGWHNMLKT-----VYSDVE--------TPHLM 615
            ++           +G +KFY GW   LK      VY D +        TP+L+
Sbjct: 2735 ME-------CPWTVGMTKFYKGWDEFLKKFPDGWVYCDADGSQFDSSLTPYLL 2780


spQ90069
POLG_SBMVG
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Soybean mosaic virus
(strain G2) (SMV)]
3066 AA
align
 Score = 34.3 bits (77), Expect = 0.11
 Identities = 61/289 (21%), Positives = 111/289 (38%), Gaps = 33/289 (11%)

Query: 411  KPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLL 470
            +P   NKD    A  +GFFK    V L    F Q    A++             D ++ +
Sbjct: 2344 QPSRLNKD----AFKRGFFKYNKPVVLNEVDF-QSFERAVAGVKLMMMEF----DFKECV 2394

Query: 471  FVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYY---DSMSYEDQDAL 527
            +V +  D+ +D  +       Q      D  +G   + + K RL Y   + + Y ++   
Sbjct: 2395 YVTDP-DEIYDSLNMKAAVGAQYKGKKQDYFSGM--DSFDKERLLYLSCERLFYGEKGVW 2451

Query: 528  FAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATV 587
                K  + P       K          T+ G  +C    N QF+     S+  T   TV
Sbjct: 2452 NGSLKAELRPIEKVQANKTRTFTAAPIDTLLGAKVCVDDFNNQFY-----SLNLTCPWTV 2506

Query: 588  VIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTC 645
              G +KFY GW  +++++          GW Y   D +    ++  ++ + VL  +    
Sbjct: 2507 --GMTKFYRGWDKLMRSLPD--------GWVYCHADGSQFDSSLTPLLLNAVLDVRSFFM 2556

Query: 646  CNLSHRFYRLANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSV 693
             +       L N  A+++   ++   G+++ K  G +SG  +T   N++
Sbjct: 2557 EDWWVGREMLENLYAEIVYTPILAPDGTIFKKFRGNNSGQPSTVVDNTL 2605


spP21231
POLG_SBMVN
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Soybean mosaic virus
(strain N) (SMV)]
3066 AA
align
 Score = 32.7 bits (73), Expect = 0.31
 Identities = 53/265 (20%), Positives = 108/265 (40%), Gaps = 40/265 (15%)

Query: 454  DYYRYNLPTMCD------IRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFN 507
            D+++YN P + +        + +  V+++   FD  +   +     I ++L+  A     
Sbjct: 2356 DFFKYNKPVVLNEVDFQSFERAVAGVKLMMMEFDFKECVYVTDPDEIYDSLNMKAAVGAQ 2415

Query: 508  KWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTITQMNLKYAISAK-NRART--- 556
              GK + Y+  M   D++ L         Y ++ V     +  L+     + N+ RT   
Sbjct: 2416 YKGKKQDYFSGMDSFDKERLLYLSCERLFYGEKGVWNGSLKAELRPIEKVQANKTRTFTA 2475

Query: 557  -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                 + G  +C    N QF+     S+  T   TV  G +KFY GW  +++++      
Sbjct: 2476 APIDTLLGAKVCVDDFNNQFY-----SLNLTCPWTV--GMTKFYRGWDKLMRSLPD---- 2524

Query: 612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
                GW Y   D +    ++  ++ + VL  +     +       L N  A+++   ++ 
Sbjct: 2525 ----GWVYCHADGSQFDSSLTPLLLNAVLDVRSFFMEDWWVGREMLENLYAEIVYTPILA 2580

Query: 670  -GGSLYVKPGGTSSGDATTAYANSV 693
              G+++ K  G +SG  +T   N++
Sbjct: 2581 PDGTIFKKFRGNNSGQPSTVVDNTL 2605


spP18247
POLG_PVYN
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Potato virus Y (strain N)
(PVY)]
3063 AA
align
 Score = 32.3 bits (72), Expect = 0.41
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 12/60 (20%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT-----VYSDVE 610
            T+ G  +C    N QF+ K ++           +G +KFYGGW  +L+      VY D +
Sbjct: 2473 TLLGGKVCVDDFNNQFYSKNIE-------CCWTVGMTKFYGGWDKLLRRLPENWVYCDAD 2525


spQ02963
POLG_PVYHU
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Potato virus Y (strain
Hungarian) (PVY)]
3061 AA
align
 Score = 32.3 bits (72), Expect = 0.41
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 12/60 (20%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT-----VYSDVE 610
            T+ G  +C    N QF+ K ++           +G +KFYGGW  +L+      VY D +
Sbjct: 2471 TLLGGKVCVDDFNNQFYSKNIE-------CCWTVGMTKFYGGWDRLLRRLPENWVYCDAD 2523


spP17699
RRPO_ROTPG
RNA-directed RNA polymerase subunit VP1 (EC 2.7.7.48) (Inner layer
protein VP1) (Core protein VP1) [S1] [Porcine rotavirus
(strain Gottfried)]
1088 AA
align
 Score = 32.0 bits (71), Expect = 0.54
 Identities = 36/135 (26%), Positives = 58/135 (42%), Gaps = 16/135 (11%)

Query: 675 VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKY------VRNLQHRLY 728
           ++ G  +SG+  T  ANS+ N+         AL+ T  ++IA+KY      +R      Y
Sbjct: 584 IQYGAVASGEKQTKAANSIANL---------ALIKTVLSRIANKYSFITKIIRVDGDDNY 634

Query: 729 ECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK-NFKAVLY 787
             L  N DV  + V E    +R  +S M     A+V       A+  +A  K  F+A + 
Sbjct: 635 AVLQFNTDVTKQMVQEVSNDVRYIYSRMNAKVKALVSTVGIEIAKRYIAGGKIFFRAGIN 694

Query: 788 YQNNVFMSEAKCWTE 802
             NN    ++  W +
Sbjct: 695 LLNNEKRGQSTQWDQ 709


spQ65399
POLG_BCMVN
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Bean common mosaic virus
(strain NL-3 / Michigan) (BCMV)]
3066 AA
align
 Score = 32.0 bits (71), Expect = 0.54
 Identities = 50/265 (18%), Positives = 105/265 (39%), Gaps = 40/265 (15%)

Query: 454  DYYRYNLPTMCD------IRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFN 507
            D+++YN P M +        + +  V+++   F   +   +     I ++L+  A     
Sbjct: 2360 DFFKYNKPVMLNEVNFEAFEKAVEGVKIMMIEFGFNECVYVTDPDDIYDSLNMKAAVGAQ 2419

Query: 508  KWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTITQMNLKYAISAK-NRART--- 556
              GK + Y+  M   D++ L         Y ++ +     +  L+     + N+ RT   
Sbjct: 2420 YKGKKQDYFQDMDSFDKERLLFLSCERLFYGQKGIWNGSLKAELRPLEKVQANKTRTFTA 2479

Query: 557  -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
                 + G  +C    N QF+   L            +G +KFYGGW  +++ +      
Sbjct: 2480 APIDTLLGAKVCVDDFNNQFYSFNLI-------CPWTVGMTKFYGGWDKLMRALPD---- 2528

Query: 612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
                GW Y   D +    ++  ++ + VL+ +     +       L N  A+++   ++ 
Sbjct: 2529 ----GWVYCHADGSQFDSSLTPLLLNSVLSIRSFFMEDWWVGKEMLENLYAEIVYTPILT 2584

Query: 670  -GGSLYVKPGGTSSGDATTAYANSV 693
              G+++ K  G +SG  +T   N++
Sbjct: 2585 PDGTIFKKFRGNNSGQPSTVVDNTL 2609


spP17468
RRPO_ROTBR
RNA-directed RNA polymerase subunit VP1 (EC 2.7.7.48) (Inner layer
protein VP1) (Core protein VP1) [S1] [Bovine rotavirus
(strain RF)]
1088 AA
align
 Score = 31.2 bits (69), Expect = 0.92
 Identities = 33/131 (25%), Positives = 57/131 (43%), Gaps = 8/131 (6%)

Query: 675 VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNK--IADKYVRNLQHRLYECLY 732
           ++ G  +SG+  T  ANS+ N+     A +  +LS   NK   A K +R      Y  L 
Sbjct: 584 IQYGAVASGEKQTKAANSIANL-----ALIKTVLSRISNKYSFATKIIRVDGDDNYAVLQ 638

Query: 733 RNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK-NFKAVLYYQNN 791
            N +V  + V +    +R+ ++ M     A+V       A+  +A  K  F+A +   NN
Sbjct: 639 FNTEVTEQMVQDVSNDVRETYARMNAKVKALVSTVGIEIAKRYIAGGKIFFRAGINLLNN 698

Query: 792 VFMSEAKCWTE 802
               ++  W +
Sbjct: 699 EKRGQSTQWDQ 709


spP21615
RRPO_ROTBU
RNA-directed RNA polymerase subunit VP1 (EC 2.7.7.48) (Inner layer
protein VP1) (Core protein VP1) [S1] [Bovine rotavirus
(strain UK)]
1088 AA
align
 Score = 30.8 bits (68), Expect = 1.2
 Identities = 33/131 (25%), Positives = 57/131 (43%), Gaps = 8/131 (6%)

Query: 675 VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNK--IADKYVRNLQHRLYECLY 732
           ++ G  +SG+  T  ANS+ N+     A +  +LS   NK   A K +R      Y  L 
Sbjct: 584 IQYGAVASGEKQTKAANSIANL-----ALIKTVLSRISNKYSFATKIIRVDGDDNYAVLQ 638

Query: 733 RNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK-NFKAVLYYQNN 791
            N +V  + V +    +R+ ++ M     A+V       A+  +A  K  F+A +   NN
Sbjct: 639 FNTEVTKQMVQDVSNDVRETYARMNAKVKALVSTVGIEIAKRYIAGGKIFFRAGINLLNN 698

Query: 792 VFMSEAKCWTE 802
               ++  W +
Sbjct: 699 EKRGQSTQWDQ 709


spP22678
RRPO_ROTS1
RNA-directed RNA polymerase subunit VP1 (EC 2.7.7.48) (Inner layer
protein VP1) (Core protein VP1) [S1] [Simian 11
rotavirus (strain SA11-Both)]
1088 AA
align
 Score = 30.4 bits (67), Expect = 1.6
 Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 8/131 (6%)

Query: 675 VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNK--IADKYVRNLQHRLYECLY 732
           ++ G  +SG+  T  ANS+ N+     A +  +LS   NK   A K +R      Y  L 
Sbjct: 584 IQYGAVASGEKQTKAANSIANL-----ALIKTVLSRISNKHSFATKIIRVDGDDNYAVLQ 638

Query: 733 RNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK-NFKAVLYYQNN 791
            N +V  + + +    +R+ ++ M     A+V       A+  +A  K  F+A +   NN
Sbjct: 639 FNTEVTKQMIQDVSNDVRETYARMNAKVKALVSTVGIEIAKRYIAGGKIFFRAGINLLNN 698

Query: 792 VFMSEAKCWTE 802
               ++  W +
Sbjct: 699 EKRGQSTQWDQ 709


spP89876
POLG_LMVE
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Lettuce mosaic virus
(strain E) (LMV)]
3255 AA
align
 Score = 30.4 bits (67), Expect = 1.6
 Identities = 31/135 (22%), Positives = 51/135 (37%), Gaps = 25/135 (18%)

Query: 486  GC--INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFA------YT------ 531
            GC  +   + I   L+  A       GK R Y++S   E+++ +        YT      
Sbjct: 2565 GCEYVTDEEAIFQALNMKAAVGALYSGKKRDYFESYGPEEKENILRESCKRLYTGKFGVW 2624

Query: 532  ----KRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATV 587
                K  + P    M  K  +       T+    +C    N  F+ K ++       A  
Sbjct: 2625 NGSLKSELRPMEKVMANKTRVFTAAPLDTLLAGKVCVDDFNNYFYSKNIE-------APW 2677

Query: 588  VIGTSKFYGGWHNML 602
             +G +KFYGGW+ +L
Sbjct: 2678 TVGMTKFYGGWNELL 2692


spP17766
POLG_PPVNA
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Plum pox potyvirus
(isolate NAT) (PPV)]
3125 AA
align
 Score = 29.6 bits (65), Expect = 2.7
 Identities = 52/275 (18%), Positives = 102/275 (37%), Gaps = 54/275 (19%)

Query: 510  GKARLYYDSMSYEDQDALFAYTKRNVI---PTITQMNLKYAISAKNRAR----------- 555
            GK R Y++++S +D+++    + + +      +   +LK  +  K +             
Sbjct: 2426 GKKRDYFENVSDQDKESFVRASCKRLFMGKKGVWNGSLKAELRPKEKVEANKTRSFTAAP 2485

Query: 556  --TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPH 613
              T+ G  +C    N QF+   L    +       +G +KF GGW  +LK +        
Sbjct: 2486 IDTLLGGKVCVDDFNNQFYSLNLHCPWS-------VGMTKFRGGWDKLLKALPE------ 2532

Query: 614  LMGWDYPKCDRAM------PNMLRIMASLVLARKHNTCCN---LSHRFYRLANECAQVLS 664
              GW Y   D +       P ++  + ++ LA           LS+ +  +      V +
Sbjct: 2533 --GWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEEWDIGEQMLSNLYTEI------VYT 2584

Query: 665  EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 724
             +    G++  K  G +SG  +T   N++  I     + +      D +    +Y  N  
Sbjct: 2585 PIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGHHPDTHDCICRYFVNGD 2644

Query: 725  HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILS 759
              +           H   +  Y  L++HFS + L+
Sbjct: 2645 DLVLAV--------HPAYESIYDELQEHFSQLGLN 2671


spP03303
POLG_HRV14
Genome polyprotein [Contains: Coat proteins VP1 TO VP4; Core proteins
P2A TO P2C, P3A; Genome-linked protein VPG; Picornain 3C
(EC 3.4.22.28) (Protease 3C) (P3C); RNA-directed RNA
polymerase P3D (EC 2.7.7.48)] [Human rhinovirus 14
(HRV-14)]
2179 AA
align
 Score = 29.6 bits (65), Expect = 2.7
 Identities = 49/231 (21%), Positives = 86/231 (37%), Gaps = 33/231 (14%)

Query: 497  NLDKSAGFPFNKWG-KARLYYDSMSYEDQDALFAYTKRNV-IPTITQMNLKYAISAKNR- 553
            ++  SAGFP+   G K R   +  + + +   F   K  + +P +T +  +     K R 
Sbjct: 1830 DITTSAGFPYVSLGIKKRDILNKETQDTEKMKFYLDKYGIDLPLVTYIKDELRSVDKVRL 1889

Query: 554  --ARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVET 611
              +R +   S+  ++  R     L K+     G      T    G   ++  +V   +  
Sbjct: 1890 GKSRLIEASSLNDSVNMRMKLGNLYKAFHQNPGVL----TGSAVGCDPDVFWSVIPCLMD 1945

Query: 612  PHLMGWDYPKCDRAMPNMLRIMASLVLARKH-------NTCCNLSHRFYRLANECAQVLS 664
             HLM +DY   D ++  +  +    VL +          + CN  H F            
Sbjct: 1946 GHLMAFDYSNFDASLSPVWFVCLEKVLTKLGFAGSSLIQSICNTHHIFR----------- 1994

Query: 665  EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI 715
                    +YV  GG  SG + T+  NS+ N     T  ++A    D +K+
Sbjct: 1995 ------DEIYVVEGGMPSGCSGTSIFNSMINNIIIRTLILDAYKGIDLDKL 2039


spP03132
VNCA_AAV2
DNA replication protein (Noncapsid protein) [REP] [Adeno-associated
virus 2 (AAV2)]
536 AA
align
 Score = 29.3 bits (64), Expect = 3.5
 Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 8/60 (13%)

Query: 700 VTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEF-------VDEFYAYLRKH 752
           VT+N N     DGN    ++ + LQ R+++     R +DH+F       V +F+ + + H
Sbjct: 418 VTSNTNMCAVIDGNSTTFEHQQPLQDRMFK-FELTRRLDHDFGKVTKQEVKDFFRWAKDH 476


spP09814
POLG_TVMV
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Tobacco vein mottling
virus (TVMV)]
3023 AA
align
 Score = 29.3 bits (64), Expect = 3.5
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 7/47 (14%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML 602
            T+ G  +C    N  F+ K ++   +       +G +KFYGGW+ +L
Sbjct: 2438 TLLGGKVCVDDFNNHFYSKHIQCPWS-------VGMTKFYGGWNELL 2477


spP89509
POLG_TUMVJ
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Turnip mosaic virus
(strain Japanese) (TuMV)]
3164 AA
align
 Score = 28.9 bits (63), Expect = 4.5
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 12/60 (20%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT-----VYSDVE 610
            T+ G  +C    N QF+   L+       A   +G +KFY GW  +L++     VY D +
Sbjct: 2555 TLLGGKVCVDDFNNQFYDHNLR-------APWSVGMTKFYCGWDRLLESLPDGWVYCDAD 2607


spP04517
POLG_TEV
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Tobacco etch virus (TEV)]
3054 AA
align
 Score = 28.9 bits (63), Expect = 4.5
 Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 17/68 (25%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLM 615
            T+    +C    N QF+   +K       A   +G +KFY GW+ +++ + S        
Sbjct: 2475 TLLAGKVCVDDFNNQFYDLNIK-------APWTVGMTKFYQGWNELMEALPS-------- 2519

Query: 616  GWDYPKCD 623
            GW Y  CD
Sbjct: 2520 GWVY--CD 2525


spQ84934
POLG_PPVSK
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Plum pox potyvirus (strain
SK 68) (PPV)]
3140 AA
align
 Score = 28.9 bits (63), Expect = 4.5
 Identities = 55/275 (20%), Positives = 102/275 (37%), Gaps = 54/275 (19%)

Query: 510  GKARLYYDSMSYED-QDALFAYTKRNVIPT--ITQMNLKYAISAKNRAR----------- 555
            GK R Y+ + S +D +D + A  KR  +    +   +LK  +  K +             
Sbjct: 2426 GKKRDYFKNASEQDKEDFIKASCKRLFMGKKGVWNGSLKAELRPKEKVEANKTRSFTAAP 2485

Query: 556  --TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPH 613
              T+ G  +C    N QF+   L    +       +G +KF GGW  +L+ +        
Sbjct: 2486 IDTLLGGKVCVDDFNNQFYSLNLHCPWS-------VGMTKFRGGWDKLLRALPD------ 2532

Query: 614  LMGWDYPKCDRAM------PNMLRIMASLVLARKHNTCCN---LSHRFYRLANECAQVLS 664
              GW Y   D +       P ++  + ++ LA           LS+ +  +      V +
Sbjct: 2533 --GWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEEWDIGEQMLSNLYTEI------VYT 2584

Query: 665  EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 724
             +    G++  K  G +SG  +T   N++  I     + +      D ++   +Y  N  
Sbjct: 2585 PIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHECICRYFVNGD 2644

Query: 725  HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILS 759
              +           H   +  Y  L++HFS + L+
Sbjct: 2645 DLVLAV--------HPAYESMYDELQEHFSQLGLN 2671


spP31999
POLG_LMV0
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Lettuce mosaic virus
(strain 0 / French isolate) (LMV)]
3255 AA
align
 Score = 28.9 bits (63), Expect = 4.5
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 7/47 (14%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML 602
            T+    +C    N  F+ K ++       A   +G +KFYGGW+ +L
Sbjct: 2653 TLLAGKVCVDDFNNYFYSKNIE-------APWTVGMTKFYGGWNELL 2692


spQ02597
POLG_TUMVQ
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Turnip mosaic virus
(strain Quebec) (TuMV)]
3163 AA
align
 Score = 28.5 bits (62), Expect = 5.9
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 12/60 (20%)

Query: 556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT-----VYSDVE 610
            T+ G  +C    N QF+   L+       A   +G +KFY GW  +L++     VY D +
Sbjct: 2554 TLLGGKVCVDDFNNQFYDHNLR-------APWDVGMTKFYCGWDRLLESLPDGWVYCDAD 2606


spP17767
POLG_PPVRA
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Plum pox potyvirus (strain
Rankovic) (PPV)]
3140 AA
align
 Score = 28.1 bits (61), Expect = 7.8
 Identities = 51/275 (18%), Positives = 101/275 (36%), Gaps = 54/275 (19%)

Query: 510  GKARLYYDSMSYEDQDALFAYTKRNVI---PTITQMNLKYAISAKNRAR----------- 555
            GK R Y+ ++S +D+++    + + +      +   +LK  +  K +             
Sbjct: 2426 GKKRDYFKNVSDQDKESFVRASCKRLFMGKKGVWNGSLKAELRPKEKVEANKTRSFTAAP 2485

Query: 556  --TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPH 613
              T+ G  +C    N QF+   L    +       +G +KF GGW  +L+ +        
Sbjct: 2486 IDTLLGGKVCVDDFNNQFYSLNLHCPWS-------VGMTKFRGGWDKLLRALPE------ 2532

Query: 614  LMGWDYPKCDRAM------PNMLRIMASLVLARKHNTCCN---LSHRFYRLANECAQVLS 664
              GW Y   D +       P ++  + ++ LA           LS+ +  +      V +
Sbjct: 2533 --GWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEEWDIGEQMLSNLYTEI------VYT 2584

Query: 665  EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 724
             +    G++  K  G +SG  +T   N++  I     + +      D +    +Y  N  
Sbjct: 2585 PIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHDCICRYFVNGD 2644

Query: 725  HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILS 759
              +           H   +  Y  L++HFS + L+
Sbjct: 2645 DLVLAV--------HPAYESIYDELQEHFSQLGLN 2671


spP13529
POLG_PPVD
Genome polyprotein [Contains: N-terminal protein (P1); Helper
component proteinase (EC 3.4.22.45) (HC-Pro); Protein P3;
6 kDa protein 1 (6K1); Cytoplasmic inclusion protein
(CI); 6 kDa protein 2 (6K2); Genome-linked protein (VPG);
Nuclear inclusion protein A (NI-A) (NIA) (EC 3.4.22.44)
(49 kDa proteinase) (49 kDa-Pro); Nuclear inclusion
protein B (NI-B) (NIB) (RNA-directed RNA polymerase) (EC
2.7.7.48); Coat protein (CP)] [Plum pox potyvirus (strain
D) (PPV)]
3141 AA
align
 Score = 28.1 bits (61), Expect = 7.8
 Identities = 51/275 (18%), Positives = 101/275 (36%), Gaps = 54/275 (19%)

Query: 510  GKARLYYDSMSYEDQDALFAYTKRNVI---PTITQMNLKYAISAKNRAR----------- 555
            GK R Y+ ++S +D+++    + + +      +   +LK  +  K +             
Sbjct: 2427 GKKRDYFKNVSDQDKESFVRASCKRLFMGKKGVWNGSLKAELRPKEKVEANKTRSFTAAP 2486

Query: 556  --TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPH 613
              T+ G  +C    N QF+   L    +       +G +KF GGW  +L+ +        
Sbjct: 2487 IDTLLGGKVCVDDFNNQFYSLNLHCPWS-------VGMTKFRGGWDKLLRALPE------ 2533

Query: 614  LMGWDYPKCDRAM------PNMLRIMASLVLARKHNTCCN---LSHRFYRLANECAQVLS 664
              GW Y   D +       P ++  + ++ LA           LS+ +  +      V +
Sbjct: 2534 --GWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEEWDIGEQMLSNLYTEI------VYT 2585

Query: 665  EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 724
             +    G++  K  G +SG  +T   N++  I     + +      D +    +Y  N  
Sbjct: 2586 PIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHDCICRYFVNGD 2645

Query: 725  HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILS 759
              +           H   +  Y  L++HFS + L+
Sbjct: 2646 DLVLAV--------HPAYESIYDELQEHFSQLGLN 2672


Database: XXswissprot Viruses
    Posted date:  Apr 29, 2003 11:07 AM
  Number of letters in database: 3,552,911
  Number of sequences in database:  8482
  
Lambda     K      H
   0.324    0.138    0.430 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,018,226
Number of Sequences: 8482
Number of extensions: 317313
Number of successful extensions: 1087
Number of sequences better than 10.0: 35
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1041
Number of HSP's gapped (non-prelim): 57
length of query: 932
length of database: 3,552,911
effective HSP length: 101
effective length of query: 831
effective length of database: 2,696,229
effective search space: 2240566299
effective search space used: 2240566299
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 61 (28.1 bits)

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