BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= lcl|NC_011273.1_cdsid_YP_002225123.1 [gene=246] [protein=gp246] [protein_id=YP_002225123.1] [location=148768..151059] (763 letters) Database: capsid_neck_tail 514 sequences; 206,069 total letters Searching...................................................done Score E Sequences producing significant alignments: (bits) Value gi|26227|lcl|protein:vir:7745 Length: 738 # NCBI annotation: gp2... 798 0.0 gi|22566|lcl|protein:vir:107279 Length: 1007 # NCBI annotation: ... 457 e-130 gi|21825|lcl|protein:vir:98727 Length: 592 # NCBI annotation: te... 37 6e-04 gi|24012|lcl|protein:vir:104946 Length: 547 # NCBI annotation: T... 27 0.77 gi|24686|lcl|protein:vir:79769 Length: 635 # NCBI annotation: te... 27 1.1 gi|8562|lcl|protein:vir:100097 Length: 571 # NCBI annotation: gp... 25 4.0 gi|19787|lcl|protein:vir:2340 Length: 562 # NCBI annotation: gp1... 25 4.4 gi|13932|lcl|protein:vir:1429 Length: 570 # NCBI annotation: put... 24 5.4 gi|12826|lcl|protein:vir:80335 Length: 571 # NCBI annotation: gp... 24 6.4 >gi|26227|lcl|protein:vir:7745 Length: 738 # NCBI annotation: gp239 # Family: family:all:11526 # MgeID: mge:148 # MgeName: Bxz1 # Cross-refs: genbank:acc:NP_818289;genbank:gi:29566722;genbank:GeneID :1259826 Length = 738 Score = 798 bits (2060), Expect = 0.0, Method: Compositional matrix adjust. Identities = 393/757 (51%), Positives = 512/757 (67%), Gaps = 39/757 (5%) Query: 14 FDPIAQFQNAMRAGPPWESIVDFATHRSFCGMQLYPRQLTLLKLIYLETEMFTQYDWDTI 73 F P+ F+ A+R G PW+SIVDF H SFCG LYPRQ+TLLKLIYLETE T YD I Sbjct: 13 FRPLDSFREAVRNGRPWDSIVDFVVHPSFCGRMLYPRQMTLLKLIYLETETMTDYDLTVI 72 Query: 74 GSWADGFKDRTRPMGVQPDIFDRIQYLKNNGYHHFPHVQTVMGRRASKGIIGGVTGAERL 133 G WADGFK+R +P+GVQPDI DR++ LK+ GY HFPH+Q V+GRRASKGI+GG+ ER+ Sbjct: 73 GEWADGFKNRAQPIGVQPDIMDRVKLLKSLGYTHFPHIQMVLGRRASKGIMGGIVTTERI 132 Query: 134 AYFYSLDDWQRHFGIVPNAVGELTVIATTQAQAADRQFGDIRRTVEGCAYLAPHIVANRV 193 AY YSL WQ+H+ VP V E+ V+A + + RQF DIR TV C YL HIV +++ Sbjct: 133 AYLYSLGSWQQHYNQVPGQVAEIQVVAPSLNLSVTRQFKDIRNTVMDCKYLREHIVGDKI 192 Query: 194 TDFYIRTPSDERHIDEMRLKGISLDREFASLHASAAATSSTSKRGGNGFANYYDEFAHQI 253 T+F+IRTP DE+ I E +L G+ DRE AS+ AA +STS RGG GF N YDE+AH + Sbjct: 193 TEFFIRTPGDEQTIIENKLSGVDSDREIASIVCKAATATSTSGRGGTGFVNCYDEYAHML 252 Query: 254 MGTGSTKSGDEVYAAQQPSLDQFGIQKFTYIPSSPFTKVGRFYQLYQEGCVTMEEYNQRE 313 GTGS K+G+E+Y A QP+LDQFG TY+ SSP++K+G+FY+LYQ+G VT+ EYN RE Sbjct: 253 TGTGSAKTGEEIYDAFQPALDQFGKDAMTYLASSPYSKIGKFYELYQQGSVTLPEYNARE 312 Query: 314 GKFERRTYTEKHMGMDMDEVEEELEVAVADPEMLVVQLPSWETYRDWDSAHTIPMRPGKK 373 GK E ++ E+ D+D EEE VA+P L+VQLPSWE Y+D+D +H IPM PGK+ Sbjct: 313 GKLETTSFAERAASQDID--EEEASATVAEPTFLIVQLPSWELYKDYDKSHQIPMLPGKR 370 Query: 374 RTFPRWKRPVQWDPEGDG-PEAKSMQRMRHKNPEKFKVERGAQFASVEDAYLNEVMVDKM 432 RTFP W P+Q+ P+ G P+ + +R R +NP+KFKVERG QFA+V+DAYL+E VD+M Sbjct: 371 RTFPHWPGPIQYKPDPKGTPDERVQERRRLRNPDKFKVERGGQFATVQDAYLDENKVDQM 430 Query: 433 FDKPWWRDEVVPIEKGKFSIVYRAHGDPSRTNANFGWAIGHMEDAPCDGCGWDPNNMPPG 492 F P WRD + P ++GK S++YRAH DPSRTNANFG+ I H+EDAP D G+ Sbjct: 431 FLPPSWRDPLFPQDRGKLSMLYRAHADPSRTNANFGFCIAHLEDAPPDEHGY-------- 482 Query: 493 TPPQMKYSHNCKMGGRVLPHVIFDKLHVWKAENFPEHTINYVTVGRDIDQFLRKFPSIDK 552 V PHVI D L VWK E+FP+HT++YV V ++D +L +FP+I+K Sbjct: 483 ----------------VWPHVIIDVLKVWKPEDFPDHTLDYVQVTEELDNYLTRFPTIEK 526 Query: 553 LTYDQYAAFGLVDQQRLDHPQMHIFEKTFTVQENQRRFERFKAAINLGLVHAYRDDFFDD 612 ++YDQ+ + GL+ Q+ + I ++TFT Q+NQ RFE+FK+A+NLG VH+++DDF +D Sbjct: 527 MSYDQFNSAGLISHQKRKFSNIRILQQTFTEQQNQDRFEKFKSALNLGWVHSWKDDFAED 586 Query: 613 GMSLLEQELKFLQEKNG----KVDKQEIGPVTTKDLADCVMVVAVDLLEDHLERWYKGRT 668 G SLLE ELKFLQEK KVDKQ+IGPV TKDLADCVMVV DLL L+RWY + Sbjct: 587 GQSLLELELKFLQEKVSGSKIKVDKQDIGPVQTKDLADCVMVVVTDLLHASLDRWYASLS 646 Query: 669 RAAFGSTHAAGLKSGREQERMALAGVGGRDAPKDARAVRARSNRHNLERFNADRQDRRER 728 + + GST+AAGLKSGRE ER ++ + RA A + + R+ AD+ R ER Sbjct: 647 KMSGGSTNAAGLKSGREMERHSIFQANQ----VEHRA--ATATMDPMSRYFADQAAREER 700 Query: 729 GF--GSMIRDPFAPTSARRSERNRRGDYTPSRARGRF 763 + R R++RN P R RGRF Sbjct: 701 KAERAAQNRATLERNKLSRAQRNMGYGAPPGRTRGRF 737 >gi|22566|lcl|protein:vir:107279 Length: 1007 # NCBI annotation: gp242 # Family: family:all:11526 # MgeID: mge:1550 # MgeName: Catera # Cross-refs: genbank:acc:YP_656220;genbank:gi:109393421;genbank:GeneID :4156748 Length = 1007 Score = 457 bits (1175), Expect = e-130, Method: Compositional matrix adjust. Identities = 235/481 (48%), Positives = 310/481 (64%), Gaps = 39/481 (8%) Query: 290 TKVGRFYQLYQEGCVTMEEYNQREGKFERRTYTEKHMGMDMDEVEEELEVAVADPEMLVV 349 +K+G+FY+LYQ+G VT+ EYN REGK E ++ E+ D+DE EE VA+P L+V Sbjct: 558 SKIGKFYELYQQGSVTLPEYNAREGKLETTSFAERAASQDIDE--EEASATVAEPTFLIV 615 Query: 350 QLPSWETYRDWDSAHTIPMRPGKKRTFPRWKRPVQWDPEGDG-PEAKSMQRMRHKNPEKF 408 QLPSWE Y+D+D +H IPM PGK+RTFP W P+Q+ P+ G P+ + +R R +NP+KF Sbjct: 616 QLPSWELYKDYDKSHQIPMLPGKRRTFPHWPGPIQYKPDPKGTPDERVQERRRLRNPDKF 675 Query: 409 KVERGAQFASVEDAYLNEVMVDKMFDKPWWRDEVVPIEKGKFSIVYRAHGDPSRTNANFG 468 KVERG QFA+V+DAYL+E VD+MF P WRD + P ++GK S++YRAH DPSRTNANFG Sbjct: 676 KVERGGQFATVQDAYLDENKVDQMFLPPSWRDPLFPQDRGKLSMLYRAHADPSRTNANFG 735 Query: 469 WAIGHMEDAPCDGCGWDPNNMPPGTPPQMKYSHNCKMGGRVLPHVIFDKLHVWKAENFPE 528 + I H+EDAP D G+ V PHVI D L VWK ++FPE Sbjct: 736 FCIAHLEDAPPDEHGY------------------------VWPHVIIDVLKVWKPQDFPE 771 Query: 529 HTINYVTVGRDIDQFLRKFPSIDKLTYDQYAAFGLVDQQRLDHPQMHIFEKTFTVQENQR 588 HT++YV V ++D +L +FP+I+K++YDQ+ + GL+ Q+ + I ++TFT Q+NQ Sbjct: 772 HTLDYVQVTEELDAYLTRFPTIEKMSYDQFNSAGLISHQKRKFTNIRILQQTFTEQQNQD 831 Query: 589 RFERFKAAINLGLVHAYRDDFFDDGMSLLEQELKFLQEKNG----KVDKQEIGPVTTKDL 644 RFE+FK+A+NLG VH YRDDF +DG SLLE ELKFLQEK KVDKQ+IGPV TKDL Sbjct: 832 RFEKFKSALNLGWVHCYRDDFAEDGQSLLELELKFLQEKISGSKIKVDKQDIGPVQTKDL 891 Query: 645 ADCVMVVAVDLLEDHLERWYKGRTRAAFGSTHAAGLKSGREQERMALAGVGGRDAPKDAR 704 ADCVMVV DLL L+RWY ++ + GST+AAGLKSGRE ER ++ A Sbjct: 892 ADCVMVVVTDLLHASLDRWYASLSKMSGGSTNAAGLKSGREMERHSIF------QANQAE 945 Query: 705 AVRARSNRHNLERFNADRQDRRERGF--GSMIRDPFAPTSARRSERNRRGDYTPSRARGR 762 A + + R+ AD+ R ER + R R++RN P R RGR Sbjct: 946 HRAATATMDPMSRYFADQAAREERKAERAAQNRATLERNKLSRAQRNMGYGAPPGRTRGR 1005 Query: 763 F 763 F Sbjct: 1006 F 1006 Score = 348 bits (892), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 159/276 (57%), Positives = 199/276 (72%) Query: 14 FDPIAQFQNAMRAGPPWESIVDFATHRSFCGMQLYPRQLTLLKLIYLETEMFTQYDWDTI 73 F P+ F+ A+R G PW+SIVDF H SFCG LYPRQ+TLLKLIYLETE T YD I Sbjct: 13 FRPLDSFREAVRNGRPWDSIVDFVVHPSFCGRMLYPRQMTLLKLIYLETETMTDYDLTVI 72 Query: 74 GSWADGFKDRTRPMGVQPDIFDRIQYLKNNGYHHFPHVQTVMGRRASKGIIGGVTGAERL 133 G WADGFK+R +P+GVQPDI DR++ LK+ GY HFPH+Q V+GRRASKGI+GG+ ER+ Sbjct: 73 GEWADGFKNRAQPIGVQPDIMDRVKLLKSLGYTHFPHIQMVLGRRASKGIMGGIVTTERI 132 Query: 134 AYFYSLDDWQRHFGIVPNAVGELTVIATTQAQAADRQFGDIRRTVEGCAYLAPHIVANRV 193 AY YSL WQ+H+ VP V E+ V+A + + RQF DIR TV C YL HIV +++ Sbjct: 133 AYLYSLGSWQQHYNQVPGQVAEIQVVAPSLNLSVTRQFKDIRNTVMDCKYLREHIVGDKI 192 Query: 194 TDFYIRTPSDERHIDEMRLKGISLDREFASLHASAAATSSTSKRGGNGFANYYDEFAHQI 253 T+F+IRTP DE+ I E +L G+ DRE AS+ AA +STS RGG GF N YDE+AH + Sbjct: 193 TEFFIRTPGDEQTIIENKLSGVDSDREIASIVCKAATATSTSGRGGTGFVNCYDEYAHML 252 Query: 254 MGTGSTKSGDEVYAAQQPSLDQFGIQKFTYIPSSPF 289 GTGS K+G+E+Y A QP+LDQFG TY+ SSP+ Sbjct: 253 TGTGSAKTGEEIYDAFQPALDQFGKDAMTYLASSPY 288 >gi|21825|lcl|protein:vir:98727 Length: 592 # NCBI annotation: terminase # Family: family:all:11211 # MgeID: mge:1530 # MgeName: Ma-LMM01 # Cross-refs: genbank:acc:YP_851132;genbank:gi:117530289;genbank:GeneI D:4484391 Length = 592 Score = 37.4 bits (85), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 41/177 (23%), Positives = 70/177 (39%), Gaps = 27/177 (15%) Query: 14 FDPIAQFQNAMRAGPPWES------IVDFATHRSFC-GMQLYPRQLTLLKLIYLETEMFT 66 DPI F + G IV+FA G +L+P Q +L+ +Y E Sbjct: 7 LDPIELFDELVYEGLAQVKTNHVIGIVEFAEQYLLAPGDRLFPPQRAILRALY--NEPLP 64 Query: 67 QYDWDTIGSWADGFKDRTRPMGVQPDIFDRIQYLKNNGYHHFPHVQTVMGRRASKGIIGG 126 + + + WA+ +D T + PD + ++ GRR K ++ Sbjct: 65 EDELAILQRWAE--QDVTTWV---PD-------------RSYVNMVLECGRRGGKSVLAS 106 Query: 127 VTGAERLAYFYSLDDWQRHFGIVPNAVGELTVIATTQAQAADRQFGDIRRTVEGCAY 183 + +LD+ +H+G++ + + VIA + AQ + FG IR AY Sbjct: 107 ICVLYEFYCLINLDNPAKHYGLLSGSPIAIFVIARSGAQVNETLFGAIRGYASQSAY 163 >gi|24012|lcl|protein:vir:104946 Length: 547 # NCBI annotation: T4-like DNA packaging large subunit terminase # Family: family:all:147 # MgeID: mge:1630 # MgeName: P-SSM2 # Cross-refs: genbank:acc:YP_214360;genbank:gi:61806000;genbank:GeneID :3294466 Length = 547 Score = 26.9 bits (58), Expect = 0.77, Method: Compositional matrix adjust. Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 8/94 (8%) Query: 216 SLDREFASLHASAAATSSTSKRGGNGFANYYDEFAHQIMGTGSTKSGDEVYAAQQPSLDQ 275 SL+ E S SA +TSS++ RGG+ + DEFA D+ +A+ P++ Sbjct: 143 SLELENGS-KISANSTSSSAVRGGSYNVIFLDEFAFI-----PNHIADDFFASVYPTITS 196 Query: 276 FGIQKFTYIPSSPFTKVGRFYQLYQEGCVTMEEY 309 G I S+P + FY+++ + EY Sbjct: 197 -GQSTKVIIVSTP-RGMNHFYRMWHDSEKGKSEY 228 >gi|24686|lcl|protein:vir:79769 Length: 635 # NCBI annotation: terminase large subunit # Family: family:all:4877 # MgeID: mge:1874 # MgeName: 0305phi8-36 # Cross-refs: genbank:acc:YP_001429607;genbank:gi:156564098;genbank:Ge neID:5525534 Length = 635 Score = 26.6 bits (57), Expect = 1.1, Method: Compositional matrix adjust. Identities = 20/105 (19%), Positives = 46/105 (43%), Gaps = 4/105 (3%) Query: 393 EAKSMQRMRHKNPEKFKVERGAQFASVEDAYLNEVMVDKMFDKPWWRDEVVPIEKGKFSI 452 E ++ +R++ PE+ K+ + + D+Y + K + +D+ + + G + Sbjct: 202 EITNIMNIRNEAPERIKMIVASTPSGRRDSYYKWCV---GATKTYAQDDELTRQNGG-RV 257 Query: 453 VYRAHGDPSRTNANFGWAIGHMEDAPCDGCGWDPNNMPPGTPPQM 497 Y P +T A+ + + + D +G GW + P P++ Sbjct: 258 TYNVKMKPWKTLADGSYELNQLGDKMREGNGWTTIHAPSTVNPEL 302 >gi|8562|lcl|protein:vir:100097 Length: 571 # NCBI annotation: gp2 # Family: family:all:35 # ACLAME annotation(s): phi:0000073 - phage terminase large subunit # MgeID: mge:1639 # MgeName: phi1026b # Cross-refs: genbank:acc:NP_945032;genbank:gi:38707892;genbank:GeneID :2744144 Length = 571 Score = 24.6 bits (52), Expect = 4.0, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 19/31 (61%) Query: 572 PQMHIFEKTFTVQENQRRFERFKAAINLGLV 602 P+ + E+T EN+R ER++A +N G + Sbjct: 395 PRFWVPEETVRNTENRRMAERYQAWVNQGCL 425 >gi|19787|lcl|protein:vir:2340 Length: 562 # NCBI annotation: gp10 # Family: family:all:1551 # MgeID: mge:51 # MgeName: Bxb1 # Cross-refs: genbank:acc:NP_075277;genbank:gi:12657864;genbank:GeneID :920069 Length = 562 Score = 24.6 bits (52), Expect = 4.4, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Query: 353 SWETYRDWDSAHTIPMRPGKK 373 SW DWD H+ +RP K Sbjct: 348 SWLAPADWDKCHSTSLRPLTK 368 >gi|13932|lcl|protein:vir:1429 Length: 570 # NCBI annotation: putative terminase (large subunit) # Family: family:all:35 # ACLAME annotation(s): phi:0000073 - phage terminase large subunit # MgeID: mge:30 # MgeName: phiE125 # Cross-refs: genbank:acc:NP_536358;genbank:gi:17975163;genbank:GeneID :929161 Length = 570 Score = 24.3 bits (51), Expect = 5.4, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 18/31 (58%) Query: 572 PQMHIFEKTFTVQENQRRFERFKAAINLGLV 602 P+ + E T EN+R ER++A +N G + Sbjct: 395 PRFWVPEDTVRNTENRRMAERYQAWVNQGCL 425 >gi|12826|lcl|protein:vir:80335 Length: 571 # NCBI annotation: gp2, phage terminase, large subunit, putative # Family: family:all:35 # ACLAME annotation(s): phi:0000073 - phage terminase large subunit # MgeID: mge:1881 # MgeName: phi644-2 # Cross-refs: genbank:acc:YP_001111081;genbank:gi:134288625;genbank:Ge neID:4960582 Length = 571 Score = 24.3 bits (51), Expect = 6.4, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 18/31 (58%) Query: 572 PQMHIFEKTFTVQENQRRFERFKAAINLGLV 602 P+ + E T EN+R ER++A +N G + Sbjct: 396 PRFWVPEDTVRNTENRRMAERYQAWVNHGFL 426 Database: capsid_neck_tail Posted date: Nov 7, 2013 12:16 PM Number of letters in database: 206,069 Number of sequences in database: 514 Lambda K H 0.320 0.136 0.424 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 367,142 Number of Sequences: 514 Number of extensions: 18004 Number of successful extensions: 53 Number of sequences better than 100.0: 9 Number of HSP's better than 100.0 without gapping: 8 Number of HSP's successfully gapped in prelim test: 1 Number of HSP's that attempted gapping in prelim test: 30 Number of HSP's gapped (non-prelim): 12 length of query: 763 length of database: 206,069 effective HSP length: 79 effective length of query: 684 effective length of database: 165,463 effective search space: 113176692 effective search space used: 113176692 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: 41 (20.4 bits)