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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: 2422 AA (of which 5% low-complexity regions filtered out)
Date run: 2003-05-01 14:54:11 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) ... 4618   0.0
 sp P19751 RRPA_CVMJH RNA-directed RNA polymerase (ORF1A) (EC 2.7...  830   0.0
 sp P27920 VGF1_IBVB F1 protein [F1] [Avian infectious bronchitis...  347 2e-95
 sp Q05002 R1AB_CVH22 Replicase polyprotein 1ab (pp1ab) (ORF1AB) ...  339 3e-93
 sp P36327 POLN_EEVV3 Nonstructural polyprotein [Contains: Nonstr...   54 3e-07
 sp P27282 POLN_EEVVT Nonstructural polyprotein [Contains: Nonstr...   54 4e-07
 sp P36328 POLN_EEVVP Nonstructural polyprotein [Contains: Nonstr...   54 4e-07
 sp P13889 POLN_RUBVT Nonstructural polyprotein [Contains: Nonstr...   41 0.003
 sp P26627 RRPA_CVMJD RNA-directed RNA polymerase (ORF1A) (EC 2.7...   38 0.027
 sp P27283 POLN_SINDO Nonstructural polyprotein (P270) [Contains:...   35  0.13
 sp P29165 POLG_YEFV8 Genome polyprotein [Contains: Capsid protei...   35  0.17
 sp P03317 POLN_SINDV Nonstructural polyprotein (P270) [Contains:...   34  0.29
 sp P17397 VMSA_HPBVI Major surface antigen precursor [S] [Hepati...   33  0.86
 sp P17101 VMSA_HPBV9 Major surface antigen precursor [S] [Hepati...   32   1.1
 sp P19901 POLG_YEFV2 Genome polyprotein [Contains: Capsid protei...   32   1.1
 sp P03314 POLG_YEFV1 Genome polyprotein [Contains: Capsid protei...   32   1.1
 sp P33853 VA38_VARV Protein A38 [A38L] [Variola virus]                32   1.5
 sp Q9T1R6 VP32_BPAPS Putative DNA transfer protein P32 [32] [Bac...   32   1.9
 sp P36819 VE7_HPV12 E7 protein [E7] [Human papillomavirus type 12]    32   1.9
 sp P17399 VMSA_HPBVO Major surface antigen precursor [S] [Hepati...   31   2.5
 sp P06430 VE7_HPV08 E7 protein [E7] [Human papillomavirus type 8]     31   2.5
 sp P03142 VMSA_HPBVW Major surface antigen precursor [S] [Hepati...   31   3.3
 sp P26559 VE7_HPV5B E7 protein [E7] [Human papillomavirus type 5b]    31   3.3
 sp Q90115 OE66_NPVLD Occlusion-derived virus envelope protein E6...   31   3.3
 sp P03138 VMSA_HPBVY Major surface antigen precursor [S] [Hepati...   30   4.3
 sp P03141 VMSA_HPBV2 Major surface antigen precursor [S] [Hepati...   30   4.3
 sp P41426 Y021_NPVAC Hypothetical 36.6 kDa protein in EGT-IAP1 i...   30   7.3
 sp Q02317 VMSA_HPBVP Major surface antigen precursor [S] [Hepati...   30   7.3
 sp P17398 VMSA_HPBVJ Major surface antigen precursor [S] [Hepati...   30   7.3
 sp Q02119 RRPL_RDVA RNA-directed RNA polymerase (EC 2.7.7.48) (R...   30   7.3
 sp P31873 VMSA_HPBV0 Major surface antigen [S] [Hepatitis B virus]    29   9.5
 sp P24759 ATI1_VACCV 94 kDa A-type inclusion protein (ATI) [Vacc...   29   9.5




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 = 4618 bits (11978), Expect = 0.0
 Identities = 2306/2422 (95%), Positives = 2306/2422 (95%)

Query: 1    APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE 60
            APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE
Sbjct: 819  APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE 878

Query: 61   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPXXXXXXXXXX 120
            AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPP          
Sbjct: 879  AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC 938

Query: 121  XXXXXXXXXXXXYGTEDDYQGLPLEFGASAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 180
                        YGTEDDYQGLPLEFGASA                              
Sbjct: 939  EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQSEIEPEPEPT 998

Query: 181  XXXXVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN 240
                VNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN
Sbjct: 999  PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN 1058

Query: 241  GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS 300
            GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS
Sbjct: 1059 GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS 1118

Query: 301  QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA 360
            QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA
Sbjct: 1119 QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA 1178

Query: 361  PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK 420
            PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK
Sbjct: 1179 PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK 1238

Query: 421  LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV 480
            LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV
Sbjct: 1239 LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV 1298

Query: 481  DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA 540
            DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA
Sbjct: 1299 DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA 1358

Query: 541  EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN 600
            EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN
Sbjct: 1359 EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN 1418

Query: 601  EPLVTMPIGYVTHGFNLEEAARCMRSLKXXXXXXXXXXXXXTTYNGYLTSSSKTSEEHFV 660
            EPLVTMPIGYVTHGFNLEEAARCMRSLK             TTYNGYLTSSSKTSEEHFV
Sbjct: 1419 EPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFV 1478

Query: 661  ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEVXXXXXXXXXXX 720
            ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEV           
Sbjct: 1479 ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEVLSLDKLKSLLS 1538

Query: 721  XREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL 780
             REVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL
Sbjct: 1539 LREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL 1598

Query: 781  PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL 840
            PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL
Sbjct: 1599 PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL 1658

Query: 841  ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL 900
            ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL
Sbjct: 1659 ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL 1718

Query: 901  ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 960
            ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE
Sbjct: 1719 ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 1778

Query: 961  SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG 1020
            SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG
Sbjct: 1779 SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG 1838

Query: 1021 PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP 1080
            PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP
Sbjct: 1839 PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP 1898

Query: 1081 NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK 1140
            NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK
Sbjct: 1899 NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK 1958

Query: 1141 GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC 1200
            GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC
Sbjct: 1959 GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC 2018

Query: 1201 ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE 1260
            ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE
Sbjct: 2019 ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE 2078

Query: 1261 NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA 1320
            NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA
Sbjct: 2079 NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA 2138

Query: 1321 QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP 1380
            QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP
Sbjct: 2139 QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP 2198

Query: 1381 KFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF 1440
            KFSKLFTIAMW             VTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF
Sbjct: 2199 KFSKLFTIAMWLLLLSICLGSLICVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF 2258

Query: 1441 CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL 1500
            CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL
Sbjct: 2259 CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL 2318

Query: 1501 GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM 1560
            GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM
Sbjct: 2319 GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM 2378

Query: 1561 DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG 1620
            DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG
Sbjct: 2379 DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG 2438

Query: 1621 STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF 1680
            STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF
Sbjct: 2439 STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF 2498

Query: 1681 VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVG 1740
            VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQ LVSDVG
Sbjct: 2499 VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQVLVSDVG 2558

Query: 1741 DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGX 1800
            DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQG 
Sbjct: 2559 DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGV 2618

Query: 1801 XXXXXXXXXXIECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA 1860
                      IECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA
Sbjct: 2619 VDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA 2678

Query: 1861 QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK 1920
            QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK
Sbjct: 2679 QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK 2738

Query: 1921 GGKIVSTCFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII 1980
            GGKIVSTCFKLMLKAT          YIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII
Sbjct: 2739 GGKIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII 2798

Query: 1981 STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF 2040
            STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF
Sbjct: 2799 STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF 2858

Query: 2041 LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG 2100
            LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG
Sbjct: 2859 LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG 2918

Query: 2101 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 2160
            SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS
Sbjct: 2919 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 2978

Query: 2161 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 2220
            GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA
Sbjct: 2979 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 3038

Query: 2221 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 2280
            YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS
Sbjct: 3039 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 3098

Query: 2281 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC 2340
            FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC
Sbjct: 3099 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC 3158

Query: 2341 TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF 2400
            TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF
Sbjct: 3159 TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF 3218

Query: 2401 SNSGADVLYQPPQTSITSAVLQ 2422
            SNSGADVLYQPPQTSITSAVLQ
Sbjct: 3219 SNSGADVLYQPPQTSITSAVLQ 3240






spP19751
RRPA_CVMJH		RNA-directed RNA polymerase (ORF1A) (EC 2.7.7.48) [Murine coronavirus
            MHV (strain JHM)]		          4488 AA 
align
 Score =  830 bits (2144), Expect = 0.0
 Identities = 558/1745 (31%), Positives = 842/1745 (48%), Gaps = 107/1745 (6%)

Query: 727  IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 786
            + V  TVD  N  +  V     +G+  G  + DG +VTK++    H+GK FF        
Sbjct: 1627 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA 1686

Query: 787  RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 846
               A +     DE  L +Y S L   K W     G   + K ++NNCY++   L LQ L 
Sbjct: 1687 DLAAVKDAFGFDEPQLLQYYSMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1745

Query: 847  VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 906
            +KF     +      R+G    F +L+LA  +    E  D  + +   L+ A+L  A   
Sbjct: 1746 LKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGATCD 1805

Query: 907  LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 966
            L  +CK CG K     GV+AVM+ GTL    L  G +I C CG D   +  Q    F++ 
Sbjct: 1806 LEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCG-DKLVHCTQFNVPFLIC 1863

Query: 967  SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 1026
            S  P   KL     + AN +TG    GHYTH+  K      D  +++K+SE KG  TD  
Sbjct: 1864 SNTPEGKKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL 1921

Query: 1027 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 1084
            Y K    T +    +Y LD V     +P L  YY +   YYT+  I     T       +
Sbjct: 1922 YLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVEGVY 1981

Query: 1085 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 1143
             NFKL   +   A+ LN   GF       E  +T +P   GDVV      Y + +  G  
Sbjct: 1982 TNFKLVGHD--IAEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSGGCV 2039

Query: 1144 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE-------------- 1185
               KP++W  H   +    T+  +P+  C    ++  PVD S   +              
Sbjct: 2040 TFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRGLCRLQSLLPVLR 2098

Query: 1186 -----VLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKP-- 1238
                  +++E     +  AC S     + V+E    QK+     V   EV  N + KP  
Sbjct: 2099 VVLASAISIEPGTAKEQKACASDSVEDQIVME---AQKKSSVTTVAVKEVKLNGVKKPVK 2155

Query: 1239 ---------SDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAI 1289
                          KV + L   D+   ++      +   NELS  +   T+  +     
Sbjct: 2156 WNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRLINSPTVREY----- 2210

Query: 1290 NSVPW--SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNS 1347
              V W  SK++      L +         K +  +    Y    + LL+       +T++
Sbjct: 2211 --VKWGMSKLIIPANLLLLRDEKQEFVAPKVVKAKAIACYGAVKWFLLYCFSWIKFNTDN 2268

Query: 1348 RIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXX 1399
            ++  +  T +A    K   KLC  A  N +++  +S +    F +A    +W        
Sbjct: 2269 KVIYT--TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANV 2323

Query: 1400 XXXXXVTAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFP 1446
                      G L            + FG  + C+   V +L   SS      FC GS  
Sbjct: 2324 ILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS------FCNGSMV 2377

Query: 1447 CSICLSGLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSA 1504
            C +C SG D LD+Y ++  +Q  +      D +++  L  E V+ Y L+T  FY L +  
Sbjct: 2378 CELCFSGFDMLDNYESINVVQHVVDRRVSFDYISLFKLVVELVIGYSLYTVCFYPLFVLV 2437

Query: 1505 IMQVFFGYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDG 1562
             MQ+   +    F+  +  W     + +  M P   ++R YI   + Y ++    H+M G
Sbjct: 2438 GMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYG 2497

Query: 1563 CTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGST 1622
            C+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNCLNC+++  G+T
Sbjct: 2498 CSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNT 2557

Query: 1623 FISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVN 1682
            FI+ E A DLS + KRP+NPTD + Y V  V     ++ L++++ GQ+ Y+    S FV+
Sbjct: 2558 FITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQRVYDDVSASLFVD 2617

Query: 1683 LDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDS 1742
            ++ L  +  KG    +V+V + ++  D++   +A+V+Y+Q + +P+L++++ L++     
Sbjct: 2618 MNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLMVEKKLITTANTG 2675

Query: 1743 TEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXX 1802
              VS  MFD YV +      V  + L + V  AH+ L +GV L+ V+ TFV  AR+    
Sbjct: 2676 LSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFVGCARRKCAI 2735

Query: 1803 XXXXXXXXI-ECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQ 1861
                    I + +  + ++ +EVT +SCNN + TY K + +   DLG  I  NA+H+ + 
Sbjct: 2736 DSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQSN 2795

Query: 1862 VAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKG 1921
            VAK+ NV+ IW+V  +  LS  L+ ++R A  K  +  +LT       V ++TT  SLKG
Sbjct: 2796 VAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEANVPILTTPFSLKG 2855

Query: 1922 GKIVSTCFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIS 1981
            G + S   + +  A           + +MP + +   D        +K I +GV RD+  
Sbjct: 2856 GAVFSRVLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSV 2912

Query: 1982 TDDCFANKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD 2039
            TD CFANK   FD W+    G   Y+N K+CPVV A+I ++IG  +  +P  VLR     
Sbjct: 2913 TDACFANKFNQFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLR-YGFH 2971

Query: 2040 FLHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLE 2099
             LHF+   F+     CYTP   I Y +F  S CVL++ CT+   A G P PYCY   ++ 
Sbjct: 2972 VLHFITHAFATDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMH 3031

Query: 2100 GSISYSELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLS 2158
             +  YS L P  RY L   +  I+FP    EG VRVV T    YCR G CE +E GIC +
Sbjct: 3032 NASLYSSLVPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFN 3091

Query: 2159 TSGRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTC 2218
             +  WVLNN +YRA+ G FCG +A +LI  +   LVQP+    ++AS VAG I+AI+V  
Sbjct: 3092 FNSSWVLNNPYYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVL 3151

Query: 2219 AAYYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTND 2278
            A YY +K +R FG+Y  VV  N +++ ++F +L +   Y  L  +Y+ FY Y T YF ++
Sbjct: 3152 AFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSE 3211

Query: 2279 VSFLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAA 2338
            +S + HLQW  M+  I+P W    YV  +   H  W F +Y RK +  +  +  TFEE A
Sbjct: 3212 ISVVMHLQWLVMYGAIMPLWFCITYVAVVVSNHALWLF-SYCRK-IGTDVRSDGTFEEMA 3269

Query: 2339 LCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALN 2398
            L TF++ KE Y KL++   +    +NRYL+LYNKY+YFSG +DT +YREAAC  LAKA+ 
Sbjct: 3270 LTTFMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAME 3327

Query: 2399 DFSNS 2403
             F+++
Sbjct: 3328 TFNHN 3332


 Score = 87.4 bits (215), Expect = 3e-17
 Identities = 54/149 (36%), Positives = 77/149 (51%), Gaps = 2/149 (1%)

Query: 194  LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 253
            +T NV     D++K  +     VIVN AN  + HG GVAGA+ KA   A   E+ D +K 
Sbjct: 1336 ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVKA 1395

Query: 254  NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 311
             G   VGG    +G  L KK L++VGP+   +  E   LL+ AY++ N  D ++  L+SA
Sbjct: 1396 QGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLISA 1455

Query: 312  GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 340
            GIF      SL   +  V   V +  N++
Sbjct: 1456 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 1484


 Score = 43.1 bits (100), Expect = 6e-04
 Identities = 33/106 (31%), Positives = 53/106 (50%), Gaps = 6/106 (5%)

Query: 4   KGVTFGEDT-VWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAV 62
           K V F +   V EV   + ++I F LD   D VL++ CS + V+    + E   VV +AV
Sbjct: 852 KKVVFNDKPKVKEVPSTRKIKIIFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAV 911

Query: 63  VKTLQPVSD---LLTNMGIDLDE-WSVATFYLFDDAGEENFSSRMY 104
             TL P  +   + T +   L   W++ + +L  +A ++   SRMY
Sbjct: 912 ESTLSPCKEHGVIGTKVCALLKGWWTIMSIFLMKEA-KKLLPSRMY 956


 Score = 41.6 bits (96), Expect = 0.002
 Identities = 50/202 (24%), Positives = 82/202 (40%), Gaps = 21/202 (10%)

Query: 755  PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSE-AFEYYHTLDESFLGRYMSALNHTK 813
            P  ++  D+ K++  +  E +T    P+D T     AF+  ++   S      S   H K
Sbjct: 1064 PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK 1123

Query: 814  KWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALI 873
                  V G  S      NC+L S L+ +Q L ++F    +Q+ +   +AG    F   +
Sbjct: 1124 ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL 1177

Query: 874  LAYSNKTV--GELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMG 931
            +  + K++   + G V +     L      S K   N  C  CG +   L G++AV + G
Sbjct: 1178 VKSAPKSIILPQGGYVADFAYFFLSQC---SFKVHANWRCLKCGME-LKLQGLDAVFFYG 1233

Query: 932  TLSYDNLKTGVSIPCVCGRDAT 953
             +        VS  C CG   T
Sbjct: 1234 DV--------VSHMCKCGNSMT 1247






spP27920
VGF1_IBVB		F1 protein [F1] [Avian infectious bronchitis virus (strain Beaudette)
            (IBV)]		          3951 AA 
align
 Score =  347 bits (889), Expect = 2e-95
 Identities = 285/1046 (27%), Positives = 463/1046 (44%), Gaps = 92/1046 (8%)

Query: 1420 SYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTI 1479
            S C   ++   +S +V  + +C   F C +CL   DSL  Y    +++            
Sbjct: 1783 SLCGPYKDYGKDSFDV--LRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AA 1835

Query: 1480 LGLAAEWVLAYMLFTKFFY--LLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVS 1537
             G    W   Y++F   F   + G      V   Y   + + NS ++   +  +    V 
Sbjct: 1836 SGFIFNWNWLYLVFLILFVKPVAGF-----VIICYCVKYLVLNSTVLQTGVCFLDWF-VQ 1889

Query: 1538 AMVRMYIFFASFYYIWKSY-----VHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRS 1592
             +   + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G K+ 
Sbjct: 1890 TVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQI 1949

Query: 1593 FYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDS 1652
             +VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++VD 
Sbjct: 1950 VHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDE 2009

Query: 1653 VAVKNGALHLYFDKAGQ-KTYERHPLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCDE 1710
              + +  ++L +  A   K      +  F   D L +A   K +L    I  DG   C+ 
Sbjct: 2010 ACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNT 2069

Query: 1711 SA------SKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVP 1764
             +      +K+A++YY+Q +C+PIL+LDQAL   +     VS  + D      S+  SV 
Sbjct: 2070 QSAHALEEAKNAAIYYAQYLCKPILILDQALYEQL-VVEPVSKSVIDKVCSILSSIISVD 2128

Query: 1765 MEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEV 1824
                     TA      G   D +LS                    ++     H+ D++ 
Sbjct: 2129 ---------TAALNYKAGTLRDALLS-------------ITKDEEAVDMAIFCHNHDVDY 2166

Query: 1825 TGDSCNNFMLTYN-KVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 1883
            TGD   N + +Y      +TPRD G  I+ +A   N +V  +  V  +W   + + LS+ 
Sbjct: 2167 TGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWKFSELIKLSDS 2224

Query: 1884 LRKQIRSAAKKNNIPFRLTCATTRQVVNVITTK--ISLKGGKIVS---TCFKLMLK---A 1935
              K + SA  K+ + F +T +  +QV+   T K  +  K G IVS    CFK   K    
Sbjct: 2225 CLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEKKAGGIVSGTFKCFKSYFKWLLI 2284

Query: 1936 TXXXXXXXXXXYIVMPVHTLSIHDGY----TNEIIGYKAIQDGVTRDIISTDDCFANKHA 1991
                       Y  M V    +H  Y    T  + G+K I  GV R+I+  D CF+NK  
Sbjct: 2285 FYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDKGVLREIVPEDTCFSNKFV 2344

Query: 1992 GFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAING-DFLH-------- 2042
             FDA++   G  Y N ++CP+V A+I  + G +  G+PG V   ++G  F+H        
Sbjct: 2345 NFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVSWVMDGVMFIHMTQTERKP 2400

Query: 2043 -FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYD-TNLLEG 2100
             ++P  F+    + YT   +I    F TS  + +A C ++  A   P  YC++  N   G
Sbjct: 2401 WYIPTWFNR-EIVGYTQDSIITEGSFYTSIALFSARC-LYLTASNTPQLYCFNGDNDAPG 2458

Query: 2101 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 2160
            ++ +  + P   Y   +G  +  P   L  +  VV      YCR   CE +  G C+S +
Sbjct: 2459 ALPFGSIIPHRVYFQPNGVRLIVPQQILH-TPYVVKFVSDSYCRGSVCEYTRPGYCVSLN 2517

Query: 2161 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 2220
             +WVL N+ Y +  GVFCG     L+ ++ +     V   ++   +    +I ++V    
Sbjct: 2518 PQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NIYMQLATMFLILVVVVLIF 2576

Query: 2221 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 2280
               +KF+ VF  Y   V    L+++++  ILC+    S L  +  V Y Y +   + +  
Sbjct: 2577 AMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAVILLVLYCYASLVTSRNTV 2636

Query: 2281 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCH---WFFNNYLRKRVMFNGVTF-STFEE 2336
             + H      F  IVP W+   Y+  I   +     W +      R +++G  F   ++ 
Sbjct: 2637 IIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTTKNTRKLYDGNEFVGNYDL 2696

Query: 2337 AALCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKA 2396
            AA  TF++    ++KL +E      ++  YL+ Y + KY+SG      Y +A    LA A
Sbjct: 2697 AAKSTFVIRGSEFVKLTNEI---GDKFEAYLSAYARLKYYSGTGSEQDYLQACRAWLAYA 2753

Query: 2397 LNDFSNSGADVLYQPPQTSITSAVLQ 2422
            L+ + NSG +++Y PP+ SI  + LQ
Sbjct: 2754 LDQYRNSGVEIVYTPPRYSIGVSRLQ 2779


 Score = 67.0 bits (162), Expect = 4e-11
 Identities = 59/242 (24%), Positives = 103/242 (42%), Gaps = 13/242 (5%)

Query: 729  VFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRS 788
            ++ T D     + ++    + GQ FG  Y     V       + E K    +P+ D    
Sbjct: 1180 IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIVFTAD---DVEDKEILYVPTTD---K 1232

Query: 789  EAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVK 848
               EYY  LD      Y+  L   +KW          ++W D NC++SS ++ LQ  +++
Sbjct: 1233 SILEYYG-LDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR 1289

Query: 849  FNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLN 908
            F    L EA+ +   GD  +F A   A     VG+  D    + +L +H + +     L 
Sbjct: 1290 FKG-FLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK 1348

Query: 909  V-VCKHCGQKTTTLTGVEA-VMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 966
              V  +CG K+  L G+EA +  +   +  + KT  S    CG + T  +++    ++++
Sbjct: 1349 KRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLL 1408

Query: 967  SA 968
             A
Sbjct: 1409 FA 1410


 Score = 50.1 bits (118), Expect = 5e-06
 Identities = 55/191 (28%), Positives = 81/191 (42%), Gaps = 25/191 (13%)

Query: 203  VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 262
            V I K         IVNAAN H+ HG GVA A+         +  +DY+K +GP      
Sbjct: 1025 VVIAKALDEFKEFCIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---R 1081

Query: 263  CLLSGHNLAKKCL-HVVGPNLNAGEDIQLLKAAYENFNSQDIL--LAPLLSAGIFGAKPL 319
             +        +C+ +VVGP        + L AAY+N     ++  + P+LS GIFG    
Sbjct: 1082 LVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVDFK 1141

Query: 320  QSLQVCVQ-----TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKT 374
             S+    +     T+R  ++          Q  +DY D         KQ+    TED   
Sbjct: 1142 MSIDAMREAFEGCTIRVLLF-------SLSQEHIDYFD------VTCKQKTIYLTEDG-V 1187

Query: 375  EEKSVVQKPVD 385
            + +S+V KP D
Sbjct: 1188 KYRSIVLKPGD 1198






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 =  339 bits (870), Expect = 3e-93
 Identities = 287/1091 (26%), Positives = 475/1091 (43%), Gaps = 100/1091 (9%)

Query: 1355 TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAM-----WXXXXXXXXXXXXXVTAAF 1409
            T +    VK +AK     G+   +S K++   + A+     W                + 
Sbjct: 1949 TAVTTGDVKIMAKAPQRTGVVLKRSLKYNLKASAAVLKSKWWLLAKFTKLLLLIYTLYSV 2008

Query: 1410 GVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVT 1469
             +L   FG  ++C+     Y  S N    D+C+GS  C +CL G   L  +  L+ +   
Sbjct: 2009 VLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMCLFGYQELSQFSHLDVVWKH 2067

Query: 1470 IS----SYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMW 1525
            I+    S      ++ L   +   Y+     +++  + + + VF GY  ++     W + 
Sbjct: 2068 ITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTVGVFLGYKETN-----WFLH 2122

Query: 1526 FIIS--IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECT 1583
            FI    I     V+ +V   I F           H++ GC +  C+ C K  R  R    
Sbjct: 2123 FIPFDVICDELLVTVIVIKVISFVR---------HVLFGCENPDCIACSKSARLKRFPVN 2173

Query: 1584 TIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPT 1643
            TIVNG++RSFYV ANGG  FCK H + C++CD++  GSTFI+ EV+R+L    K  + PT
Sbjct: 2174 TIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVSRELGNITKTNVQPT 2233

Query: 1644 DQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFD 1703
              +  ++D V  +NG   LY      +T+ R+      +  + +      ++  + IVF+
Sbjct: 2234 GPAYVMIDKVEFENGFYRLY----SCETFWRYNFDITESKYSCKEVFKNCNVLDDFIVFN 2289

Query: 1704 GKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSV 1763
                 + +  K+ASVY+SQL+C+PI L+D  L+S +  S + +  +  AY+D    +F  
Sbjct: 2290 NNGT-NVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG- 2345

Query: 1764 PMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLE 1823
              + L A ++ A  + A G+++      F SA                  +  +H  D+ 
Sbjct: 2346 --KDLNANMSLAECKRALGLSISD--HEFTSA------------------ISNAHRCDVL 2383

Query: 1824 VTGDSCNNFMLTYNKVEN-MTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 1882
            ++  S NNF+ +Y K E  ++  DL  C+   A+ +NA V       ++W+ KD+ SLS 
Sbjct: 2384 LSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSA 2443

Query: 1883 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK-GGKIVSTCFKLMLKATXXXXX 1941
            + RK I   +K   + F LT    + V  +  T I  K G          +         
Sbjct: 2444 EGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQGAGDAGHSLTWLWLLCGLVCL 2503

Query: 1942 XXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAW-FSQR 2000
                    MP     I   +  E   +K I++G  ++  +   C  N    F+ W +++ 
Sbjct: 2504 IQFYLCFFMPYFMYDIVSSF--EGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKF 2561

Query: 2001 GGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICY---- 2056
            G +  N +SCP+V  +   EI   V G+P  V   + G  L F  +       +CY    
Sbjct: 2562 GFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVY--LVGKTLIFTLQAAFGNAGVCYDIFG 2617

Query: 2057 --TPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYV 2114
              TP K           C+  + CT  +   G  V YCY+T L+EGS+ YS ++ +  Y 
Sbjct: 2618 VTTPEK-----------CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYK 2665

Query: 2115 LMDGSIIQFPNTYLEG-SVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRAL 2173
              +G+ I+ P    +G   R V T   +YCR G C  S  G+C     +W +N+   R  
Sbjct: 2666 YDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVA 2722

Query: 2174 SGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEY 2233
            +G  CG    NL+ NI +          +S  ++    +        +   KFRR+FG+ 
Sbjct: 2723 NGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDL 2782

Query: 2234 NHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSP 2293
            +  V    +  L++  +  +V         Y++ Y + T       +++    +   +  
Sbjct: 2783 SVGVCTVVVAVLLN-NVSYIVTQNLVTMIAYAILYFFATRSLR--YAWIWCAAYLIAYIS 2839

Query: 2294 IVPFWITAIYVFCISLKHCHWFFNNYLRKRV---MFNGVTF-STFEEAALCTFLLNKEMY 2349
              P+W+ A Y   +          + L+ +V   +F G  F  TFE AA  TF+++   Y
Sbjct: 2840 FAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSY 2895

Query: 2350 LKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLY 2409
             KL +   +   +   Y A YN+YKY+SG  +   YR A   +LAKA+ DFS    D+LY
Sbjct: 2896 EKLANS--ISPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILY 2953

Query: 2410 QPPQTSITSAV 2420
             PP  S  S +
Sbjct: 2954 TPPTVSYGSTL 2964


 Score = 80.9 bits (198), Expect = 3e-15
 Identities = 82/296 (27%), Positives = 132/296 (44%), Gaps = 26/296 (8%)

Query: 196  DNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNG 255
            DNVA    D+       +   IVNAAN +L HGGG+A AL+  T G +Q+ S ++I L G
Sbjct: 1279 DNVAFYQGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAG 1338

Query: 256  PLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFG 315
             + VG   ++   +L  +  +VVGP     E   L+KA     N Q   L P+LS GIFG
Sbjct: 1339 KVKVGTGVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFG 1396

Query: 316  AKPLQSLQVCVQTVRT---QVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDS 372
             K   SL+V +    T   +V++  + +    +  +  L N++ +VE PK E  P     
Sbjct: 1397 IKLETSLEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQ-KVEQPKIEPKP----- 1450

Query: 373  KTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFL--TNKLLLFADINGKLYHDSQNMLR 430
                  V  KP  V  K     +++    ++   +  T+ +L   D    L +    +L 
Sbjct: 1451 -VSVIKVAPKPYRVDGKFSYFTEDLLCVADDKPIVLFTDSMLTLDDRGLALDNALSGVLS 1509

Query: 431  G--EDMSFLEKDAP------YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKV 478
               +D   + K  P      + +G V+    +   V+PS+K       + R  +K+
Sbjct: 1510 AAIKDCVDINKAIPSGNLIKFDIGSVV----VYMCVVPSEKDKHLDNNVQRCTRKL 1561


 Score = 71.2 bits (173), Expect = 2e-12
 Identities = 83/336 (24%), Positives = 138/336 (41%), Gaps = 32/336 (9%)

Query: 723  EVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPS 782
            E K I +  T D  N+H   V    ++ QQ G       D++   P   +  +       
Sbjct: 1599 EAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELLTKAID 1658

Query: 783  DDTLRSEAFE---YYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVL 839
             D +    F+    + T+D S    Y SA+          V G+  +K +DNNC++++V 
Sbjct: 1659 VDWVEFYGFKDAVTFATVDHSAFA-YESAV----------VNGIRVLKTSDNNCWVNAVC 1707

Query: 840  LALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQH-A 898
            +ALQ  +  F +  L  A+ +   GD   F A +   +    G+ GD  +T+T L ++ A
Sbjct: 1708 IALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKYLA 1767

Query: 899  NLESAKRVLNVVCKHCGQK-TTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLV 957
            N    +      C  C  K   ++  + + +   ++  D ++ G    CV G      + 
Sbjct: 1768 NEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY---CVHGIKYYSRVR 1824

Query: 958  QQESSFVMMSA----PPAEYKLQQGTFLCANEYTGNYQCGHYT-HITAKETLYRIDGAHL 1012
                  +++S     P A+ +L  G    A  ++G    GHYT + TAK+++Y  DG   
Sbjct: 1825 SVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DGDRF 1880

Query: 1013 TKMSEYKGPVTDVF----YKETSYTTTIKPVSYKLD 1044
             K       VT V     Y     T   KPV  +LD
Sbjct: 1881 VKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD 1916


 Score = 51.2 bits (121), Expect = 2e-06
 Identities = 61/266 (22%), Positives = 109/266 (40%), Gaps = 20/266 (7%)

Query: 817  FPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAY 876
            F ++ GL  +K  DNNC+++SV+L +Q   +     A+Q      + G  A         
Sbjct: 1038 FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ----FFKMGRVAKMIERCYTA 1093

Query: 877  SNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYD 936
                 G +GDV   M  LL+  +L +   V++  C  C       +G  AV++  T +  
Sbjct: 1094 EQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCS-CTSGRLEESG--AVLFC-TPTKK 1147

Query: 937  NLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHY- 995
                G  + C   R  T   +Q    FV     P          +C++ + G   CGHY 
Sbjct: 1148 AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ 1207

Query: 996  THITAKETLYRIDGAHLTKMSEY-KGPVTDVFYKETSYTT----TIKPVSYKLDGVTYTE 1050
            T+I ++     +DG  + K+  +    +  +  K+  Y      ++ P+   +D     E
Sbjct: 1208 TNIYSQNLC--VDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEE 1265

Query: 1051 --IEPKLDGYYKKDNAYYTEQPIDLV 1074
              ++ KL+ +   DN  + +  +D V
Sbjct: 1266 FVVKEKLNAFLVHDNVAFYQGDVDTV 1291






spP36327
POLN_EEVV3		Nonstructural polyprotein [Contains: Nonstructural protein NSP1;
            Nonstructural protein NSP2; Nonstructural protein NSP3;
            Nonstructural protein NSP4] [Venezuelan equine
            encephalitis virus (strain 3880)]		          2485 AA 
align
 Score = 54.3 bits (129), Expect = 3e-07
 Identities = 52/145 (35%), Positives = 65/145 (44%), Gaps = 26/145 (17%)

Query: 211  SANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNL 270
            +A   VI+NAAN   + GGGV GAL K        ES D      P+ VG + L+ G   
Sbjct: 1342 TATEGVIINAANSKGQPGGGVCGALYKKF-----PESFDL----QPIEVGKARLVKG--A 1390

Query: 271  AKKCLHVVGPNLNAGEDIQ---LLKAAYE------NFNSQDILLAPLLSAGIFG------ 315
            AK  +H VGPN N   +I+    L  AYE      N N+   +  PLLS GIF       
Sbjct: 1391 AKHIIHAVGPNFNKVSEIEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRL 1450

Query: 316  AKPLQSLQVCVQTVRTQVYIAVNDK 340
             + L  L   + T    V I   DK
Sbjct: 1451 TQSLNHLLTALDTTDADVAIYCRDK 1475






spP27282
POLN_EEVVT		Nonstructural polyprotein [Contains: Nonstructural protein NSP1;
            Nonstructural protein NSP2; Nonstructural protein NSP3;
            Nonstructural protein NSP4] [Venezuelan equine
            encephalitis virus (strain Trinidad donkey)]		          2492 AA 
align
 Score = 53.9 bits (128), Expect = 4e-07
 Identities = 51/145 (35%), Positives = 65/145 (44%), Gaps = 26/145 (17%)

Query: 211  SANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNL 270
            +A   VI+NAAN   + GGGV GAL K        ES D      P+ VG + L+ G   
Sbjct: 1342 TATEGVIINAANSKGQPGGGVCGALYKKF-----PESFDL----QPIEVGKARLVKG--A 1390

Query: 271  AKKCLHVVGPNLNAGEDIQ---LLKAAYE------NFNSQDILLAPLLSAGIFG------ 315
            AK  +H VGPN N   +++    L  AYE      N N+   +  PLLS GIF       
Sbjct: 1391 AKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRL 1450

Query: 316  AKPLQSLQVCVQTVRTQVYIAVNDK 340
             + L  L   + T    V I   DK
Sbjct: 1451 TQSLNHLLTALDTTDADVAIYCRDK 1475






spP36328
POLN_EEVVP		Nonstructural polyprotein [Contains: Nonstructural protein NSP1;
            Nonstructural protein NSP2; Nonstructural protein NSP3;
            Nonstructural protein NSP4] [Venezuelan equine
            encephalitis virus (strain P676)]		          2492 AA 
align
 Score = 53.9 bits (128), Expect = 4e-07
 Identities = 51/145 (35%), Positives = 65/145 (44%), Gaps = 26/145 (17%)

Query: 211  SANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNL 270
            +A   VI+NAAN   + GGGV GAL K        ES D      P+ VG + L+ G   
Sbjct: 1342 TATEGVIINAANSKGQPGGGVCGALYKKF-----PESFDL----QPIEVGKARLVKG--A 1390

Query: 271  AKKCLHVVGPNLNAGEDIQ---LLKAAYE------NFNSQDILLAPLLSAGIFG------ 315
            AK  +H VGPN N   +++    L  AYE      N N+   +  PLLS GIF       
Sbjct: 1391 AKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRL 1450

Query: 316  AKPLQSLQVCVQTVRTQVYIAVNDK 340
             + L  L   + T    V I   DK
Sbjct: 1451 TQSLNHLLTALDTTDADVAIYCRDK 1475






spP13889
POLN_RUBVT		Nonstructural polyprotein [Contains: Nonstructural protein NSP1;
           Nonstructural protein NSP2; Nonstructural protein NSP3;
           Nonstructural protein NSP4] [Rubella virus (strain
           Therien)]		          2205 AA 
align
 Score = 40.8 bits (94), Expect = 0.003
 Identities = 44/170 (25%), Positives = 67/170 (39%), Gaps = 21/170 (12%)

Query: 216 VIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLA-KKC 274
           V+VNAAN  L  G GV GA+      A+        +   P   G +    GH       
Sbjct: 834 VVVNAANEGLLAGSGVCGAIFANATAALAANC----RRLAPCPTGEAVATPGHGCGYTHI 889

Query: 275 LHVVGPN-------LNAGEDIQLLKAAYENF------NSQDILLAPLLSAGIFGAKPLQS 321
           +H V P        L  GE   LL+ AY +            +  PLL AG++G    +S
Sbjct: 890 IHAVAPRRPRDPAALEEGE--ALLERAYRSIVALAAARRWACVACPLLGAGVYGWSAAES 947

Query: 322 LQVCVQTVRTQVYIAVNDKALY-EQVVMDYLDNLKPRVEAPKQEEPPNTE 370
           L+  +   RT+    V+    + ++  + +   L     A ++  PP TE
Sbjct: 948 LRAALAATRTEPVERVSLHICHPDRATLTHASVLVGAGLAARRVSPPPTE 997






spP26627
RRPA_CVMJD		RNA-directed RNA polymerase (ORF1A) (EC 2.7.7.48) (Fragment)
           [Murine coronavirus MHV (strain defective JHM)]		          500 AA 
align
 Score = 37.7 bits (86), Expect = 0.027
 Identities = 44/180 (24%), Positives = 75/180 (41%), Gaps = 13/180 (7%)

Query: 755 PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSE-AFEYYHTLDESFLGRYMSALNHTK 813
           P  ++  D+ K++  +  E +T    P+D T     AF+  ++   S      S   H K
Sbjct: 316 PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK 375

Query: 814 KWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALI 873
                 V G  S      NC+L S L+ +Q L ++F    +Q+ +   +AG    F   +
Sbjct: 376 ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL 429

Query: 874 LAYSNKTV--GELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMG 931
           +  + K++   + G V +     L      S K   N  C  CG +   L G++AV + G
Sbjct: 430 VKSAPKSIILPQGGYVADFAYFFLSQC---SFKVHANWRCLKCGME-LKLQGLDAVFFYG 485






spP27283
POLN_SINDO		Nonstructural polyprotein (P270) [Contains: Nonstructural protein
            NSP1; Nonstructural NSP2; Nonstructural NSP3;
            Nonstructural NSP4] [Sindbis virus (subtype Ockelbo /
            strain Edsbyn 82-5)]		          2514 AA 
align
 Score = 35.4 bits (80), Expect = 0.13
 Identities = 62/257 (24%), Positives = 104/257 (40%), Gaps = 41/257 (15%)

Query: 217  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH 276
            +VNAAN   + G GV  A+ K    +    + +          G + L   H   KK +H
Sbjct: 1366 VVNAANPLGRPGEGVCRAIYKRWPNSFTDSATE---------TGTAKLTVCHG--KKVIH 1414

Query: 277  VVGPNLN---AGEDIQLLKAAYE------NFNSQDILLAPLLSAGIFGAKPLQSLQVCVQ 327
             VGP+       E ++LL+ AY       N ++   +  PLLS GI+ A     L+V + 
Sbjct: 1415 AVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGIYAAGK-DRLEVSLN 1473

Query: 328  TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQKPVDVK 387
             + T +     D  +Y    +D     K R++A  Q +   TE  K E+  +  + V + 
Sbjct: 1474 CLTTALDRTDADVTIY---CLD--KKWKERIDAVLQLKESVTE-LKDEDMEIDDELVWIH 1527

Query: 388  PKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQ------NMLRGEDMSFLEKDA 441
            P   +C+           F T K  L++   G  +H +        +L   D    E+  
Sbjct: 1528 P--DSCLK------GRKGFSTTKGKLYSYFEGTKFHQAAKDMAEIKVLFPNDQESNEQLC 1579

Query: 442  PYMVGDVITSGDITCVV 458
             Y++G+ + +    C V
Sbjct: 1580 AYILGETMEAIREKCPV 1596






spP29165
POLG_YEFV8		Genome polyprotein [Contains: Capsid protein C (Core protein); Matrix
            protein (Envelope protein M); Major envelope protein E;
            Nonstructural proteins NS1, NS2A] (Fragment) [Yellow
            fever virus (strain 1899/81)]		          1163 AA 
align
 Score = 35.0 bits (79), Expect = 0.17
 Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 1256 AAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVK-----PFLGQAAI 1310
            A   ++  +T+  P++ SL + L+T+A  G A    V +S +L +VK     P  G+A +
Sbjct: 308  ATLEQDKCVTVMAPDKPSLDISLETVAIDGPAEARKVCYSAVLTHVKINDKCPSTGEAHL 367

Query: 1311 TTSNCAKRLAQRVFNN 1326
               N      +R +++
Sbjct: 368  AEENEGDHACKRTYSD 383






spP03317
POLN_SINDV		Nonstructural polyprotein (P270) [Contains: Nonstructural protein
            NSP1; Nonstructural NSP2; Nonstructural NSP3;
            Nonstructural NSP4] [Sindbis virus (strain HRSP)]		          2512 AA 
align
 Score = 34.3 bits (77), Expect = 0.29
 Identities = 60/257 (23%), Positives = 103/257 (40%), Gaps = 41/257 (15%)

Query: 217  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH 276
            +VNAAN   + G GV  A+ K    +    + +       + +G           KK +H
Sbjct: 1366 VVNAANPLGRPGEGVCRAIYKRWPTSFTDSATETGTARMTVCLG-----------KKVIH 1414

Query: 277  VVGPNLN---AGEDIQLLKAAYE------NFNSQDILLAPLLSAGIFGAKPLQSLQVCVQ 327
             VGP+       E ++LL+ AY       N ++   +  PLLS GI+ A     L+V + 
Sbjct: 1415 AVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGIYAAGK-DRLEVSLN 1473

Query: 328  TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQKPVDVK 387
             + T +     D  +Y    +D     K R++A  Q +   TE  K E+  +  + V + 
Sbjct: 1474 CLTTALDRTDADVTIY---CLD--KKWKERIDAALQLKESVTE-LKDEDMEIDDELVWIH 1527

Query: 388  PKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQ------NMLRGEDMSFLEKDA 441
            P   +C+           F T K  L++   G  +H +        +L   D    E+  
Sbjct: 1528 P--DSCLK------GRKGFSTTKGKLYSYFEGTKFHQAAKDMAEIKVLFPNDQESNEQLC 1579

Query: 442  PYMVGDVITSGDITCVV 458
             Y++G+ + +    C V
Sbjct: 1580 AYILGETMEAIREKCPV 1596






spP17397
VMSA_HPBVI		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw /
            strain Indonesia/pIDW420)]		          389 AA 
align
 Score = 32.7 bits (73), Expect = 0.86
 Identities = 26/111 (23%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 283  PCKTCTTPAQGTSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 338

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MWF    +       M  + IFF  + YI
Sbjct: 339  LVPFVQWFVGLSPTVWLSVIWMMWFWGPSLYNILSPFMPLLPIFFCLWVYI 389






spP17101
VMSA_HPBV9		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw /
            strain 991)]		          400 AA 
align
 Score = 32.3 bits (72), Expect = 1.1
 Identities = 25/111 (22%), Positives = 46/111 (41%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 294  PCKTCTTPAQGNSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 349

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MW+    +     S +  + IFF  + YI
Sbjct: 350  LVPFVQWFVGLSPTVWLSAIWMMWYWGPSLYSIVSSFIPLLPIFFCLWVYI 400






spP19901
POLG_YEFV2		Genome polyprotein [Contains: Capsid protein C (Core protein); Matrix
            protein (Envelope protein M); Major envelope protein E;
            Nonstructural proteins NS1, NS2A, NS2B, NS4A and NS4B;
            Protease/helicase (EC 3.4.21.98) (NS3); RNA-directed RNA
            polymerase (EC 2.7.7.48) (NS5)] [Yellow fever virus
            (strain Pasteur 17D-204)]		          3411 AA 
align
 Score = 32.3 bits (72), Expect = 1.1
 Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 1256 AAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVK-----PFLGQAAI 1310
            A   ++  +T+  P++ SL + L+T+A    A +  V ++ +L +VK     P  G+A +
Sbjct: 308  ATLEQDKCVTVMAPDKPSLDISLETVAIDRPAEVRKVCYNAVLTHVKINDKCPSTGEAHL 367

Query: 1311 TTSNCAKRLAQRVFNN 1326
               N      +R +++
Sbjct: 368  AEENEGDNACKRTYSD 383






spP03314
POLG_YEFV1		Genome polyprotein [Contains: Capsid protein C (Core protein); Matrix
            protein (Envelope protein M); Major envelope protein E;
            Nonstructural proteins NS1, NS2A, NS2B, NS4A and NS4B;
            Protease/helicase (EC 3.4.21.98) (NS3); RNA-directed RNA
            polymerase (EC 2.7.7.48) (NS5)] [Yellow fever virus
            (strain 17D)]		          3411 AA 
align
 Score = 32.3 bits (72), Expect = 1.1
 Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 1256 AAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVK-----PFLGQAAI 1310
            A   ++  +T+  P++ SL + L+T+A    A +  V ++ +L +VK     P  G+A +
Sbjct: 308  ATLEQDKCVTVMAPDKPSLDISLETVAIDRPAEVRKVCYNAVLTHVKINDKCPSTGEAHL 367

Query: 1311 TTSNCAKRLAQRVFNN 1326
               N      +R +++
Sbjct: 368  AEENEGDNACKRTYSD 383






spP33853
VA38_VARV		Protein A38 [A38L] [Variola virus]          277 AA 
align
 Score = 32.0 bits (71), Expect = 1.5
 Identities = 30/146 (20%), Positives = 56/146 (38%), Gaps = 23/146 (15%)

Query: 2167 NEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKF 2226
            N+H+  L  +F G+    L   I    +  V + ++    V G IIA++  C A+ F   
Sbjct: 120  NDHHTMLMFIFTGITLFLLFLEIAYTSISVVFSTNLGILQVFGCIIAMIELCGAFLF--- 176

Query: 2227 RRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQ 2286
                  Y  +     ++ L+  T          LP ++ +     +F+    +S   HL 
Sbjct: 177  ------YPSMFTLRHIIGLLMMT----------LPSIFLIITKVFSFWLLCKLSCAVHLI 220

Query: 2287 WFAMFSPIVPFWITAIYVFCISLKHC 2312
             +   +     +I  +    +SLK C
Sbjct: 221  IYYQLAG----YILTVLGLGLSLKEC 242






spQ9T1R6
VP32_BPAPS		Putative DNA transfer protein P32 [32] [Bacteriophage APSE-1]          209 AA 
align
 Score = 31.6 bits (70), Expect = 1.9
 Identities = 18/60 (30%), Positives = 29/60 (48%)

Query: 185 VNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQ 244
           +N  +G      N A     +++   +AN     + +  H   GGG+AGAL  A+ GAM+
Sbjct: 128 MNAASGQASAGQNYANNVGQLLQNMGAANAAAANSPSGFHRALGGGMAGALTGASIGAMK 187






spP36819
VE7_HPV12		E7 protein [E7] [Human papillomavirus type 12]          103 AA 
align
 Score = 31.6 bits (70), Expect = 1.9
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 1197 NLACESQQPTSEEVVENPTIQKEVIE----CDVKTTEVVGNVILKPSDEGVKVTQELGHE 1252
            +L CE + P  +E  E   I + V +    C   + EV   + +  +D G++  Q+L   
Sbjct: 26   DLLCEEELPNEQETEEESDIDRTVFKIIAPCGCSSCEVNLRIFVNATDTGIRTLQDLLIS 85

Query: 1253 DL 1254
            DL
Sbjct: 86   DL 87






spP17399
VMSA_HPBVO		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw /
            strain Okinawa/pODW282)]		          389 AA 
align
 Score = 31.2 bits (69), Expect = 2.5
 Identities = 25/111 (22%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 283  PCKTCTTPAQGTSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 338

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W++WF    +       M  + IFF  + YI
Sbjct: 339  LVPFVQWFVGLSPTVWLSVIWMIWFWGPSLYNILSPFMPLLPIFFCLWVYI 389






spP06430
VE7_HPV08		E7 protein [E7] [Human papillomavirus type 8]          103 AA 
align
 Score = 31.2 bits (69), Expect = 2.5
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 1197 NLACESQQPTSEEVVENPTIQKEVIE----CDVKTTEVVGNVILKPSDEGVKVTQELGHE 1252
            +L CE + P  +E  E   I++ V +    C     +V   + +  +D G++  QEL   
Sbjct: 26   DLLCEEELPNEQETEEELDIERTVFKIVAPCGCSCCQVKLRLFVNATDSGIRTFQELLFR 85

Query: 1253 DL 1254
            DL
Sbjct: 86   DL 87






spP03142
VMSA_HPBVW		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw)]          389 AA 
align
 Score = 30.8 bits (68), Expect = 3.3
 Identities = 24/111 (21%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 283  PCKTCTTPAQGNSKFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 338

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MW+    +       +  + IFF  + YI
Sbjct: 339  LVPFVQWFVGLSPTVWLSAIWMMWYWGPSLYSIVSPFIPLLPIFFCLWVYI 389






spP26559
VE7_HPV5B		E7 protein [E7] [Human papillomavirus type 5b]          103 AA 
align
 Score = 30.8 bits (68), Expect = 3.3
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 1197 NLACESQQPTSEEVVENPTIQ----KEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHE 1252
            +L CE + P  +E  E P I+    K +  C  +  EV   + +  ++ G++  Q+L   
Sbjct: 26   DLFCEEELPNEQETEEEPDIERISYKVIAPCGCRHCEVKLRIFVHATEFGIRAFQQLLTG 85

Query: 1253 DL 1254
            DL
Sbjct: 86   DL 87






spQ90115
OE66_NPVLD		Occlusion-derived virus envelope protein E66 (ODV-E66) (Fragment)
            [Lymantria dispar multicapsid nuclear polyhedrosis virus
            (LdMNPV)]		          664 AA 
align
 Score = 30.8 bits (68), Expect = 3.3
 Identities = 36/132 (27%), Positives = 52/132 (39%), Gaps = 16/132 (12%)

Query: 2004 YKNDK-SCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI 2062
            Y ND+ +  + AAI+        P            D+ HF   +   V N C       
Sbjct: 98   YLNDELAFNLYAAIVELYYNLPFPAPVNQAPWGAQADWYHFSITMPECVQNTCIALRGFY 157

Query: 2063 EYSDFATSACVLAAECTIFK--------DAMGKPVPYCYDTNLLEGSISYSEL--RPDTR 2112
            + SD A +          F         +AM   +PYCY   LL G +S +E+  +P+ R
Sbjct: 158  DLSDIARAIIDAYLPAPTFSLGWQRTAGNAMRMCLPYCYG-QLLHG-LSAAEIGAQPEVR 215

Query: 2113 YVLMDGSIIQFP 2124
            YVL    +I FP
Sbjct: 216  YVL---GLIAFP 224






spP03138
VMSA_HPBVY		Major surface antigen precursor [S] [Hepatitis B virus (subtype ayw)]          389 AA 
align
 Score = 30.4 bits (67), Expect = 4.3
 Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C++       YP+    + +  +     T + + + W     L+     +F +L  
Sbjct: 283  PCRTCMTTAQGTSMYPSCCCTKPSDGN----CTCIPIPSSWAFGKFLWEWASARFSWLSL 338

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MW+    +       +  + IFF  + YI
Sbjct: 339  LVPFVQWFVGLSPTVWLSVIWMMWYWGPSLYSILSPFLPLLPIFFCLWVYI 389






spP03141
VMSA_HPBV2		Major surface antigen precursor [S] [Hepatitis B virus (subtype
            adw2)]		          400 AA 
align
 Score = 30.4 bits (67), Expect = 4.3
 Identities = 24/111 (21%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 294  PCKTCTTPAQGNSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 349

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MW+    +       +  + IFF  + YI
Sbjct: 350  LVPFVQWFVGLSPTVWLSAIWMMWYWGPSLYSIVSPFIPLLPIFFCLWVYI 400






spP41426
Y021_NPVAC		Hypothetical 36.6 kDa protein in EGT-IAP1 intergenic region (ORF 5)
            [Autographa californica nuclear polyhedrosis virus
            (AcMNPV)]		          319 AA 
align
 Score = 29.6 bits (65), Expect = 7.3
 Identities = 21/82 (25%), Positives = 37/82 (45%), Gaps = 11/82 (13%)

Query: 1529 SIVQMA-PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCY--KRNRATRVEC--T 1583
            S++ ++ P+     M+I F  FY+IWK  V   +  +SS   + +  K N    + C   
Sbjct: 48   SVINLSIPIMLAFGMWILFYMFYFIWKIIVWTKNRSSSSNTNVNFNAKENFYVAITCIMV 107

Query: 1584 TIVNGM------KRSFYVYANG 1599
             ++ G+          YV+ NG
Sbjct: 108  NVITGLCWMLFAAFQIYVFKNG 129






spQ02317
VMSA_HPBVP		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw /
            strain Philippino/pFDW294)]		          400 AA 
align
 Score = 29.6 bits (65), Expect = 7.3
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 294  PCKTCTTPAQGNSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWASVRFSWLSL 349

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWF 1526
            L   +Q F G   + ++S  W+MW+
Sbjct: 350  LVPFVQWFVGLSPTVWLSAIWMMWY 374






spP17398
VMSA_HPBVJ		Major surface antigen precursor [S] [Hepatitis B virus (subtype adw /
            strain Japan/pJDW233)]		          389 AA 
align
 Score = 29.6 bits (65), Expect = 7.3
 Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 8/111 (7%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+             + T + + + W  A  L+     +F +L  
Sbjct: 283  PCKTCTTPAQGTSMFPSC----CCTKPMDGNCTCIPIPSSWAFAKYLWEWASVRFSWLSL 338

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYI 1552
            L   +Q F G   + ++S  W+MW+    +       M  + IFF  + YI
Sbjct: 339  LVPFVQWFVGLSPTVWLSVIWMMWYWGPSLYNILSPFMPLLPIFFCLWVYI 389






spQ02119
RRPL_RDVA		RNA-directed RNA polymerase (EC 2.7.7.48) (Replicase) [S1] [Rice
           dwarf virus (isolate Akita) (RDV)]		          1444 AA 
align
 Score = 29.6 bits (65), Expect = 7.3
 Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 3/95 (3%)

Query: 18  GYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKT---LQPVSDLLT 74
           G  N+RI+ E D+R  KV     S +    G+ + +   V  E ++ T   L    +   
Sbjct: 552 GIGNLRISIETDKRKYKVRTTSKSAFVNAMGSGILDVNPVSNEPMMLTDYLLTQTPETRA 611

Query: 75  NMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYP 109
           N+   +D  S++   L    G+ +  SR   ++ P
Sbjct: 612 NLEAAIDSGSISDSELMRILGQNSIGSRSTTAWRP 646






spP31873
VMSA_HPBV0		Major surface antigen [S] [Hepatitis B virus]          226 AA 
align
 Score = 29.3 bits (64), Expect = 9.5
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 1446 PCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLF----TKFFYLLG 1501
            PC  C +       +P+    + T  +     T + + + W  A  L+     +F +L  
Sbjct: 120  PCKTCTTPAQGNSMFPSCCCTKPTDGN----CTCIPIPSSWAFAKYLWEWGSVRFSWLSL 175

Query: 1502 LSAIMQVFFGYFASHFISNSWLMWF 1526
            L   +Q F G   + ++S  W+MW+
Sbjct: 176  LVPFVQWFVGLSPTVWLSVIWMMWY 200






spP24759
ATI1_VACCV		94 kDa A-type inclusion protein (ATI) [Vaccinia virus (strain WR)]          724 AA 
align
 Score = 29.3 bits (64), Expect = 9.5
 Identities = 26/132 (19%), Positives = 56/132 (42%), Gaps = 18/132 (13%)

Query: 280 PNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVND 339
           P+   G++ Q +K  +   N +D  + P          PL+         RT + IA  D
Sbjct: 349 PHATGGDEDQPIKVVHPPNNDKDDAIKPY--------NPLEDPNYVPTITRTAIGIA--D 398

Query: 340 KALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTT 399
             L    ++++LD          +EE  N+ + KTE +   +K  ++  ++   + ++ T
Sbjct: 399 YQLVINKLIEWLDKC--------EEECGNSGEFKTELEEAKRKLTELNAELSDKLSKIRT 450

Query: 400 TLEETKFLTNKL 411
              ++ + T ++
Sbjct: 451 LERDSVYKTERI 462





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
   0.320    0.135    0.403 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,489,305
Number of Sequences: 8482
Number of extensions: 706601
Number of successful extensions: 1684
Number of sequences better than 10.0: 32
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1592
Number of HSP's gapped (non-prelim): 71
length of query: 2422
length of database: 3,552,911
effective HSP length: 108
effective length of query: 2314
effective length of database: 2,636,855
effective search space: 6101682470
effective search space used: 6101682470
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 64 (29.3 bits)





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