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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: 527 AA
Date run: 2003-05-01 15:08:51 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) ... 1122   0.0
 sp P16342 RRPB_CVMA5 RNA-directed RNA polymerase (EC 2.7.7.48) (...  663   0.0
 sp P29982 RRPB_CVMJH RNA-directed RNA polymerase (EC 2.7.7.48) (...  655   0.0
 sp P26314 RRPB_IBVB RNA-directed RNA polymerase (ORF1B) (EC 2.7....  589 e-169
 sp Q05002 R1AB_CVH22 Replicase polyprotein 1ab (pp1ab) (ORF1AB) ...  565 e-162
 sp P18458 RRPB_BEV RNA-directed RNA polymerase (EC 2.7.7.48) (OR...   53 2e-07
 sp P36294 NCAP_TSWVS Nucleocapsid protein [N] [Tomato spotted wi...   30   1.1
 sp Q01552 VP40_BDV 40 kDa protein [P40] [Borna disease virus (BDV)]   29   1.8
 sp P50639 UNG_HSV7J Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U...   28   3.1
 sp P52447 UNG_HSV6Z Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U...   28   3.1
 sp P52345 UNG_HSV6U Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U...   28   5.3
 sp P03766 Y290_LAMBD Hypothetical nin region protein ORF290 [Bac...   27   9.1



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 = 1122 bits (2903), Expect = 0.0
 Identities = 527/527 (100%), Positives = 527/527 (100%)

Query: 1    AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF 60
            AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF
Sbjct: 5903 AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF 5962

Query: 61   KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV 120
            KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV
Sbjct: 5963 KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV 6022

Query: 121  PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR 180
            PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR
Sbjct: 6023 PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR 6082

Query: 181  VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF 240
            VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF
Sbjct: 6083 VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF 6142

Query: 241  MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG 300
            MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG
Sbjct: 6143 MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG 6202

Query: 301  DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA 360
            DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA
Sbjct: 6203 DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA 6262

Query: 361  YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY 420
            YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY
Sbjct: 6263 YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY 6322

Query: 421  VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG 480
            VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG
Sbjct: 6323 VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG 6382

Query: 481  GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 527
            GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ
Sbjct: 6383 GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 6429






spP16342
RRPB_CVMA5		RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [F2] [Murine
            coronavirus MHV (strain A59)]		          2733 AA 
align
 Score =  663 bits (1711), Expect = 0.0
 Identities = 304/524 (58%), Positives = 387/524 (73%), Gaps = 6/524 (1%)

Query: 5    TGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMN 63
            T LFKDCS+   G HP  AP+ L+VD K+K  G L V +      +TY RLIS+MGFK++
Sbjct: 1542 TNLFKDCSRSYVGYHPAHAPSFLAVDDKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLD 1601

Query: 64   YQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTG 123
              ++GY  +FITR+EAI+ VRAW+GFD EG HA RD++GTN PLQLGFSTG++ V   TG
Sbjct: 1602 LTLDGYCKLFITRDEAIKRVRAWVGFDAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATG 1661

Query: 124  YVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVF 183
                 +   F +  A+ PPG+QFKHLIPLM +G  W+VVRI+IVQMLSD L  L+D VV 
Sbjct: 1662 MFAERDGYVFKKAAARAPPGEQFKHLIPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVL 1721

Query: 184  VLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMID 243
            V WA  FELT ++YF K+G E  C +C KRATCF++ +  Y CW HS   DY+YNP ++D
Sbjct: 1722 VTWAASFELTCLRYFAKVGREVVCSVCTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVD 1781

Query: 244  VQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDEL 303
            +QQWG+TG+L SNHD  C VH  AHVAS DAIMTRCLAVH+CF K V+W++EYPII +E+
Sbjct: 1782 IQQWGYTGSLTSNHDPICSVHKGAHVASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEV 1841

Query: 304  RVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKI 363
             VN++CR +Q ++ ++A+L +++ V +DIGNPK + CV     ++KFYDA P       +
Sbjct: 1842 SVNTSCRLLQRVMFRAAMLCNRYDVCYDIGNPKGLACV--KGYDFKFYDASPV---VKSV 1896

Query: 364  EELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNK 423
            ++  Y Y  H D+F DG+C+FWNCNVD+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNK
Sbjct: 1897 KQFVYKYEAHKDQFLDGLCMFWNCNVDKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNK 1956

Query: 424  HAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAV 483
            HAFHT  F ++AF NLK +PFFYYSD+PC          +DYVPL+SATCITRCNLGGAV
Sbjct: 1957 HAFHTSPFTRAAFENLKPMPFFYYSDTPCVYMEGMESKQVDYVPLRSATCITRCNLGGAV 2016

Query: 484  CRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 527
            C  HA EYR+YL++YN   +AGF+ W+YK FD YNLWNTFTRLQ
Sbjct: 2017 CLKHAEEYREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTRLQ 2060






spP29982
RRPB_CVMJH		RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [Murine coronavirus
            MHV (strain JHM)]		          2731 AA 
align
 Score =  655 bits (1689), Expect = 0.0
 Identities = 303/524 (57%), Positives = 386/524 (73%), Gaps = 8/524 (1%)

Query: 5    TGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMN 63
            T LFKDCSK   G+ P      L+VD K+K  G L V +      +TY RLIS+MGFK++
Sbjct: 1542 TNLFKDCSKSYVGIPP--CAFLLAVDDKYKVSGNLAVCLNVADSAVTYSRLISLMGFKLD 1599

Query: 64   YQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTG 123
              ++GY  +FITR+EAI+ VRAW+GFD EG HATRD++GTN PLQLGFSTG++ V   TG
Sbjct: 1600 LTLDGYCKLFITRDEAIKRVRAWVGFDAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATG 1659

Query: 124  YVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVF 183
                 +   F +  A+ PPG+QFKHL+PLM +G  W+VVRI+IVQMLSD L  L+D VV 
Sbjct: 1660 MFAERDGYVFKKAAARAPPGEQFKHLVPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVL 1719

Query: 184  VLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMID 243
            V WA  FELT ++YF K+G E  C +C+KRATCF++ +  Y CW HS   DY+YNP ++D
Sbjct: 1720 VTWAASFELTCLRYFAKVGKEVVCSVCNKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVD 1779

Query: 244  VQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDEL 303
            +QQWG+TG+L SNHD  C VH  AHVAS DAIMTRCLAVH+CF K V+W++EYPII +E+
Sbjct: 1780 IQQWGYTGSLTSNHDPICSVHKGAHVASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEV 1839

Query: 304  RVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKI 363
             VN++CR +Q ++ ++A+L +++ V +DIGNPK + CV     ++KFYDA P       +
Sbjct: 1840 SVNTSCRLLQRVMFRAAMLCNRYDVCYDIGNPKGLACV--KGYDFKFYDASPV---VKSV 1894

Query: 364  EELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNK 423
            ++  Y Y  H D+F DG+C+FWNCNVD+YPANA+VCRFDTRVLS LNLPGC+GGSLYVNK
Sbjct: 1895 KQFVYKYEAHKDQFLDGLCMFWNCNVDKYPANAVVCRFDTRVLSKLNLPGCNGGSLYVNK 1954

Query: 424  HAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAV 483
            HAFHT  F ++AF NLK +PFFYYSD+PC          +DYVPL+SATCITRCNLGGAV
Sbjct: 1955 HAFHTNPFTRAAFENLKPMPFFYYSDTPCVYMEGMESKQVDYVPLRSATCITRCNLGGAV 2014

Query: 484  CRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 527
            C  HA EYR+YL++YN   +AGF+ W+YK FD YNLWNTFTRLQ
Sbjct: 2015 CLKHAEEYREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTRLQ 2058






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 =  589 bits (1519), Expect = e-169
 Identities = 273/525 (52%), Positives = 364/525 (69%), Gaps = 7/525 (1%)

Query: 5    TGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIP--KDMTYRRLISMMGFKM 62
            TGLFK C+K  +G+HP  A T  ++   +K       +  +    ++TY+ LIS++GFKM
Sbjct: 1493 TGLFKICNKEFSGVHPAYAVTTKALAATYKVNDELAALVNVEAGSEITYKHLISLLGFKM 1552

Query: 63   NYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPT 122
            +  V G  NMFITR+EAIR+VR W+GFDVE  HA    +GTNLP Q+GFSTG + V  P 
Sbjct: 1553 SVNVEGCHNMFITRDEAIRNVRGWVGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTPE 1612

Query: 123  GYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVV 182
            G VDT     F  VN+K PPG+QF HL  L     PW+V+R +IVQML+D L  +SD VV
Sbjct: 1613 GLVDTSIGNNFEPVNSKAPPGEQFNHLRVLFKSAKPWHVIRPRIVQMLADNLCNVSDCVV 1672

Query: 183  FVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMI 242
            FV W HG ELT+++YFVKIG E+ C  C  RAT F++ +  YACW H +GFD+VYNP ++
Sbjct: 1673 FVTWCHGLELTTLRYFVKIGKEQVCS-CGSRATTFNSHTQAYACWKHCLGFDFVYNPLLV 1731

Query: 243  DVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDE 302
            D+QQWG++GNLQ NHD HC VHG+AHVAS DAIMTRCLA++  F + V+W + YP I +E
Sbjct: 1732 DIQQWGYSGNLQFNHDLHCNVHGHAHVASVDAIMTRCLAINNAFCQDVNWDLTYPHIANE 1791

Query: 303  LRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYK 362
              VNS+CR +Q M + + + A K  V++DIGNPK IKCV + +V ++FYD  P       
Sbjct: 1792 DEVNSSCRYLQRMYLNACVDALKVNVVYDIGNPKGIKCVRRGDVNFRFYDKNPI---VRN 1848

Query: 363  IEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVN 422
            +++  Y Y  H DKF DG+C+FWNCNVD YP N++VCR+DTR LS  NLPGC+GGSLYVN
Sbjct: 1849 VKQFEYDYNQHKDKFADGLCMFWNCNVDCYPDNSLVCRYDTRNLSVFNLPGCNGGSLYVN 1908

Query: 423  KHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGA 482
            KHAF+TP FD+ +F NLK +PFF+Y  SPCE+     V+  D V L +  CIT+CN+GGA
Sbjct: 1909 KHAFYTPKFDRISFRNLKAMPFFFYDSSPCETIQVDGVAQ-DLVSLATKDCITKCNIGGA 1967

Query: 483  VCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 527
            VC+ HA  Y +++ +YN  ++AGF+ W+  + + YNLW +F+ LQ
Sbjct: 1968 VCKKHAQMYAEFVTSYNAAVTAGFTFWVTNKLNPYNLWKSFSALQ 2012






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 =  565 bits (1456), Expect = e-162
 Identities = 276/528 (52%), Positives = 360/528 (68%), Gaps = 15/528 (2%)

Query: 1    AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEG-LCVDIPGIPKDMTYRRLISMMG 59
            +E+  GLFKDC++    L P+ A T+LS+  +FKT G L V I G     TY  +IS MG
Sbjct: 5593 SESSCGLFKDCARNPIDLPPSHATTYLSLSDRFKTSGDLAVQI-GNNNVCTYEHVISYMG 5651

Query: 60   FKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVA 119
            F+ +  + G  ++F TR+ A+RHVR W+G DVEG H T D VGTN+PLQ+GFS GV+ VA
Sbjct: 5652 FRFDVSMPGSHSLFCTRDFAMRHVRGWLGMDVEGAHVTGDNVGTNVPLQVGFSNGVDFVA 5711

Query: 120  VPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSD 179
             P G V T   +    V A+ PPG+QF H++PL+ KG PW+V+R +IVQM++D L G SD
Sbjct: 5712 QPEGCVLTNTGSVVKPVRARAPPGEQFTHIVPLLRKGQPWSVLRKRIVQMIADFLAGSSD 5771

Query: 180  RVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNP 239
             +VFVLWA G ELT+M+YFVKIG  +  C C   ATC+++ S+ Y C+ H++G DYVYNP
Sbjct: 5772 VLVFVLWAGGLELTTMRYFVKIGAVKH-CQCGTVATCYNSVSNDYCCFKHALGCDYVYNP 5830

Query: 240  FMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPII 299
            ++ID+QQWG+ G+L +NH   C VH N HVAS DAIMTRCLAV++CFVK VDWS+ YP+I
Sbjct: 5831 YVIDIQQWGYVGSLSTNHHAICNVHRNEHVASGDAIMTRCLAVYDCFVKNVDWSITYPMI 5890

Query: 300  GDELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDK 359
             +E  +N   R VQ  ++++A+       +HDIGNPK I+C    + +W  YD  P +  
Sbjct: 5891 ANENAINKGGRTVQSHIMRAAIKLYNPKAIHDIGNPKGIRCA-VTDAKWYCYDKNPINS- 5948

Query: 360  AYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSL 419
               ++ L Y Y TH     DG+CLFWNCNVD YP  +IVCRFDTR  S LNL G +GGSL
Sbjct: 5949 --NVKTLEYDYMTHGQ--MDGLCLFWNCNVDMYPEFSIVCRFDTRTRSTLNLEGVNGGSL 6004

Query: 420  YVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSD-IDYVPLKSATCITRCN 478
            YVN HAFHTPA+DK A   LK  PFFYY D  CE     VV D ++YVPL++  CIT+CN
Sbjct: 6005 YVNNHAFHTPAYDKRAMAKLKPAPFFYYDDGSCE-----VVHDQVNYVPLRATNCITKCN 6059

Query: 479  LGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRL 526
            +GGAVC  HAN YR Y+++YN+   AGF++W+   FD YNLW TFT +
Sbjct: 6060 IGGAVCSKHANLYRAYVESYNIFTQAGFNIWVPTTFDCYNLWQTFTEV 6107






spP18458
RRPB_BEV		RNA-directed RNA polymerase (EC 2.7.7.48) (ORF1B) [POL] [Berne virus
            (BEV)]		          2291 AA 
align
 Score = 52.8 bits (125), Expect = 2e-07
 Identities = 37/103 (35%), Positives = 54/103 (52%), Gaps = 11/103 (10%)

Query: 183  FVLWAHGFELTSMKYFVKIGPERTC--CLCDKRATCFSTSSDTYACWNHSVGF--DYVYN 238
            F+L++   +L S+K++V+     TC  C C + A C     + Y C N   G     + N
Sbjct: 1511 FILYSCSNDLKSLKFYVEFD---TCYFCSCGEMAICLMRDGN-YKCRNCYGGMLISKLVN 1566

Query: 239  PFMIDVQQWGFTGNLQSNHDQHCQ-VHGNAHVASCDAIMTRCL 280
               +DVQ+      LQ  HD  CQ  HG++H A CDA+MT+CL
Sbjct: 1567 CKYLDVQKERV--KLQDAHDAICQQFHGDSHEALCDAVMTKCL 1607






spP36294
NCAP_TSWVS		Nucleocapsid protein [N] [Tomato spotted wilt virus (strain SA-05)
           (TSWV) (Groundnut ringspot virus)]		          258 AA 
align
 Score = 30.0 bits (66), Expect = 1.1
 Identities = 30/104 (28%), Positives = 49/104 (47%), Gaps = 8/104 (7%)

Query: 47  KDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRH--VRAWIGFDVEGCHATRDAV--G 102
           KDMT+RRL SM+  K+  +     N+ I + +   H  V+A+ G  ++   + R A+  G
Sbjct: 89  KDMTFRRLDSMIRVKLIEETANNENLAIIKAKIASHPLVQAY-GLPLDDAKSVRLAIMLG 147

Query: 103 TNLPLQLGFSTGVNLVAVPTGYVDT---ENNTEFTRVNAKPPPG 143
            ++PL     +   +  V   Y D+   E   E T+ N K   G
Sbjct: 148 GSIPLIASVDSLEMISVVLAIYQDSQVQELGIEPTKYNTKEALG 191






spQ01552
VP40_BDV		40 kDa protein [P40] [Borna disease virus (BDV)]          370 AA 
align
 Score = 29.3 bits (64), Expect = 1.8
 Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 11/74 (14%)

Query: 274 AIMTRCLAVHECFVKRVDWSVEYPIIGDELR---VNSACRKVQHMVVKSALLADKFPVLH 330
           A MT    + E   + +D ++  P++  E+R     SA  K +H        AD FP L 
Sbjct: 233 AQMTTYTTIKEYLAECMDATLTIPVVAYEIRDFLEVSAKLKEEH--------ADLFPFLG 284

Query: 331 DIGNPKAIKCVPQA 344
            I +P AIK  P++
Sbjct: 285 AIRHPDAIKLAPRS 298






spP50639
UNG_HSV7J		Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U81] [Human herpesvirus
           (type 7 / strain JI) (HHV7)]		          254 AA 
align
 Score = 28.5 bits (62), Expect = 3.1
 Identities = 11/37 (29%), Positives = 23/37 (62%), Gaps = 4/37 (10%)

Query: 150 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLW 186
           +P+ ++ + W V+  +I+  LS+ ++ L    VF+LW
Sbjct: 158 VPMSHEAIGWQVLSNRIINQLSEKMQNL----VFMLW 190






spP52447
UNG_HSV6Z		Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U81] [Human herpesvirus
           (type 6 / strain Z29) (HHV6)]		          255 AA 
align
 Score = 28.5 bits (62), Expect = 3.1
 Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 4/39 (10%)

Query: 148 HLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLW 186
           H +P+ ++   W  +  KI+  LS+ +  L    VF+LW
Sbjct: 158 HGLPMSHEAFGWQTLSYKIISRLSEQMNSL----VFLLW 192






spP52345
UNG_HSV6U		Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) [U81] [Human herpesvirus
           (type 6 / strain Uganda-1102) (HHV6)]		          255 AA 
align
 Score = 27.7 bits (60), Expect = 5.3
 Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 4/41 (9%)

Query: 148 HLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAH 188
           H +P+ ++   W  +  KI+  LS  +    D +VF+LW +
Sbjct: 158 HGLPMSHEAFGWQTLSYKIISKLSVEM----DSLVFLLWGN 194






spP03766
Y290_LAMBD		Hypothetical nin region protein ORF290 [Bacteriophage lambda]          290 AA 
align
 Score = 26.9 bits (58), Expect = 9.1
 Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 7/65 (10%)

Query: 46  PKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNL 105
           PK++ YR  +S+ G    Y  N Y  ++   ++ +R  R    FD   C  + +  G  L
Sbjct: 229 PKEIMYRGRMSLDGIAKMYSENDYQALY---QDMVRAKR----FDTGSCSESCEIFGGQL 281

Query: 106 PLQLG 110
               G
Sbjct: 282 DFDFG 286





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    0.139    0.454 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,236,817
Number of Sequences: 8482
Number of extensions: 193310
Number of successful extensions: 460
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 437
Number of HSP's gapped (non-prelim): 17
length of query: 527
length of database: 3,552,911
effective HSP length: 96
effective length of query: 431
effective length of database: 2,738,639
effective search space: 1180353409
effective search space used: 1180353409
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.9 bits)





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