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_021560.1_cdsid_YP_008130148.1 [gene=RHXG_00001] [protein=terminase large subunit] [partial=5'] [protein_id=YP_008130148.1] [location=<1..1332] (443 letters) Database: capsid_neck_tail 514 sequences; 206,069 total letters Searching...................................................done Score E Sequences producing significant alignments: (bits) Value gi|19539|lcl|protein:vir:10320 Length: 627 # NCBI annotation: OR... 79 1e-16 gi|15908|lcl|protein:vir:3418 Length: 641 # NCBI annotation: DNA... 75 2e-15 gi|17272|lcl|protein:vir:387 Length: 640 # NCBI annotation: gp2 ... 75 2e-15 gi|8305|lcl|protein:vir:96700 Length: 689 # NCBI annotation: put... 71 2e-14 gi|5978|lcl|protein:vir:95489 Length: 659 # NCBI annotation: Put... 65 1e-12 gi|12290|lcl|protein:vir:79539 Length: 699 # NCBI annotation: pu... 40 8e-05 gi|24325|lcl|protein:vir:100809 Length: 488 # NCBI annotation: h... 31 0.030 gi|13903|lcl|protein:vir:9870 Length: 273 # NCBI annotation: put... 25 1.3 gi|24686|lcl|protein:vir:79769 Length: 635 # NCBI annotation: te... 25 2.0 gi|19767|lcl|protein:vir:6384 Length: 677 # NCBI annotation: ter... 23 5.6 >gi|19539|lcl|protein:vir:10320 Length: 627 # NCBI annotation: ORF22 # Family: family:all:140 # MgeID: mge:182 # MgeName: VHML # Cross-refs: genbank:acc:NP_758915;genbank:gi:27311189;genbank:GeneID :956138 Length = 627 Score = 78.6 bits (192), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 97/403 (24%), Positives = 151/403 (37%), Gaps = 58/403 (14%) Query: 13 GHCRIDRDFRRSDQRFWYIRCPECGTEQVQEDANLVINREHLHKTVMRCVSCTHHISEME 72 G CRI+++F RSDQR++++ CP CG + + + +N C SC I E Sbjct: 208 GVCRIEKEFIRSDQRYFHVPCPHCGHKHILQWSNFRWPEGQPELAHFVCPSCKKDIEEGS 267 Query: 73 RVPAVQQGRYIP----TITGPDRHP-----------------------GFHVDAFMSLMM 105 + V G + T G ++ P GFH+ A S + Sbjct: 268 KKEMVAAGEFRSIKPFTCCGHEQEPEAWDKKGRPICKHCGEVKISGHAGFHIWAAYSDLP 327 Query: 106 SYEAIAEDKIKYEAKGEAGAK-DYSNLICAKPYQMKGNAPDHQRLMERREDY---LAGTI 161 + + K E K + K Y N I + Y+ D + L +RRE Y G + Sbjct: 328 NAKWSKLAKYWEEVKDDPDEKVVYVNTIRGETYKETETEVDWKPLYDRREPYGDDHDGKV 387 Query: 162 PAGGLLFTAGADVQSYGIYCEGVVFAEDRQSWNVFAEFFEGATDNPQAGAWLLLEEFCEQ 221 P + A D Q + + E + W + + F G DNP+ A L ++ Sbjct: 388 PEAVRIILATVDTQDNRLEMTTIGIGEGEEVWLLNRKVFMGQPDNPETLA--QLTRALDR 445 Query: 222 EFPDSHGVLRKIEALAVD-SGYRPTQVLEWCRRRPN-AYAIKGMPGRGVAAISPPVRKSV 279 + + G I A A+D G+ +L +C + + AI+G AI PP R +V Sbjct: 446 TYTHACGFSMGITACAIDVQGHYYDTMLAYCAQHSDRCVAIRGGNDYAAPAIKPPSRSNV 505 Query: 280 NKRGKRKRHGSAMSWPVGTWALKAEFYGNLHKTGLRSGEATDPPGYCHFHMDLGEE---- 335 + + + L N LR PG H E Sbjct: 506 YR--------------IPLYTLGVNNIKNRIAKRLRFKY----PGRFFIHWPKSNEFEVD 547 Query: 336 YFQQLTAEYFSQKMVKGKLHEEWM-PRREHNHFLDCRIYAMAM 377 YF+QLTAE + G + + P + N D +YA A+ Sbjct: 548 YFEQLTAETVVTEYKNGIPYRVFKNPTKARNEAWDLLVYAYAL 590 >gi|15908|lcl|protein:vir:3418 Length: 641 # NCBI annotation: DNA packaging protein # Family: family:all:140 # MgeID: mge:70 # MgeName: lambda # Cross-refs: genbank:acc:NP_040581;genbank:gi:9626245;genbank:GeneID: 2703524 Length = 641 Score = 75.1 bits (183), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 111/412 (26%), Positives = 165/412 (40%), Gaps = 65/412 (15%) Query: 13 GHCRIDRDFRRSDQ--RFWYIRCPECGTEQVQEDAN------LVINREHLHKTVMRC--V 62 G C+I+R S RF ++ CP CG EQ + + L + C Sbjct: 219 GTCQIERAASESPHFMRF-HVACPHCGEEQYLKFGDKETPFGLKWTPDDPSSVFYLCEHN 277 Query: 63 SCTHHISEMERVPAVQQGRYIPTITG------------------PDRHPGFHVDAFMSLM 104 +C E++ A RYI TG P FH+ S Sbjct: 278 ACVIRQQELDFTDA----RYICEKTGIWTRDGILWFSSSGEEIEPPDSVTFHIWTAYSPF 333 Query: 105 MSYEAIAEDKIKYEAKGEAGA-KDYSNLICAKPYQMK-GNAPDHQRLMERREDYLAGTIP 162 ++ I +D +K KG+ G K + N + ++ K G PD + + ER+E Y A +P Sbjct: 334 TTWVQIVKDWMK--TKGDTGKRKTFVNTTLGETWEAKIGERPDAEVMAERKEHYSA-PVP 390 Query: 163 AGGLLFTAGADVQ--SYGIYCEGVVFAEDRQSWNVFAEFFEGATDNPQAGAWLLLEEFCE 220 TAG D Q Y + G + +SW + + G D+ Q L ++E Sbjct: 391 DRVAYLTAGIDSQLDRYEMRVWG--WGPGEESWLIDRQIIMGRHDDEQT--LLRVDEAIN 446 Query: 221 QEFPDSHGVLRKIEALAVDSG-YRPTQVLEWCRRRPNAYAIKGMPGRGVAAISPPVRKSV 279 + + +G I + D+G PT V E R + +P +G + PV Sbjct: 447 KTYTRRNGAEMSISRICWDTGGIDPTIVYE---RSKKHGLFRVIPIKGASVYGKPVASMP 503 Query: 280 NKRGKRKRHGSAMSWPVGTWALKAEFYGNLHKTGLRSGEATDP-PGYCHF-----HMDLG 333 KR K +G ++ +GT K + Y T E +P PG HF DL Sbjct: 504 RKRNK---NGVYLT-EIGTDTAKEQIYNRFTLTP----EGDEPLPGAVHFPNNPDIFDLT 555 Query: 334 EEYFQQLTAEYFSQKMVKGKLHEEWMPRREHNHFLDCRIYAMAMAEHLGISR 385 E QQLTAE +K V G+ W ++ N LDC +YA+A A + ISR Sbjct: 556 EA--QQLTAEEQVEKWVDGRKKILWDSKKRRNEALDCFVYALA-ALRISISR 604 >gi|17272|lcl|protein:vir:387 Length: 640 # NCBI annotation: gp2 # Family: family:all:140 # MgeID: mge:325 # MgeName: N15 # Cross-refs: genbank:acc:NP_046897;genbank:gi:9630466;genbank:GeneID: 1261641 Length = 640 Score = 74.7 bits (182), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 111/410 (27%), Positives = 164/410 (40%), Gaps = 61/410 (14%) Query: 13 GHCRIDRDFRRSDQ--RFWYIRCPECGTEQV----QEDANLVINREHLHKTVMRCVSCTH 66 G C+I+R + S RF ++ CP CG EQ D E + + C H Sbjct: 219 GTCQIERAAKESGHFMRF-HVACPHCGEEQYLKFGDRDTPFGFKWEPEQAETVYYL-CEH 276 Query: 67 HISEMERVPA-VQQGRYIPTITG------------------PDRHPGFHVDAFMSLMMSY 107 + +++ RYI +TG P FH+ S ++ Sbjct: 277 NACVIKQHELDFSNARYICELTGIWTRDGLRWFSSSNAEIDPPESVTFHIWTAYSPFTTW 336 Query: 108 EAIAEDKIKYEAKGEAGA-KDYSNLICAKPYQMK-GNAPDHQRLMERREDYLAGTIPAGG 165 I +D K KG+ G K + N + ++ K G+ PD L ER+E + A +P Sbjct: 337 VQIVKDWFK--TKGDTGKRKTFVNTTLGETWEAKIGDRPDADVLAERKEHFDAA-VPERV 393 Query: 166 LLFTAGADVQ--SYGIYCEGVVFAEDRQSWNVFAEFFEGATDNPQAGAWLLLEEFCEQEF 223 TAG D Q Y + G + +SW + + G D+ A ++E + + Sbjct: 394 AYLTAGIDSQLDRYEMRVWG--WGPGEESWLIDRQIIMGRHDDESTLA--RVDEAINKTY 449 Query: 224 PDSHGVLRKIEALAVD-SGYRPTQVLEWCRRRPNAYAIKGMPGRGVAAISPPVRKSVNKR 282 +GV I + D G PT V R + +P +G + PV N Sbjct: 450 TRRNGVEMSISRICWDIGGIDPTIVYN---RSKKHGLFRVIPIKGASVYGKPV---ANMP 503 Query: 283 GKRKRHGSAMSWPVGTWALKAEFYGNLHKTGLRSGEATDPP--GYCHF-----HMDLGEE 335 KR ++G ++ VGT K + Y T + G D P G HF DL E Sbjct: 504 RKRNKNGVYLT-EVGTDTAKEQIYNRF--TLIVEG---DEPLAGAVHFPNNPDIYDLSEA 557 Query: 336 YFQQLTAEYFSQKMVKGKLHEEWMPRREHNHFLDCRIYAMAMAEHLGISR 385 QQLTAE +K V GK W ++ N LDC +YA+A A + ISR Sbjct: 558 --QQLTAEELVEKWVDGKRKIIWDSKKRRNEALDCFVYALA-ALRISISR 604 >gi|8305|lcl|protein:vir:96700 Length: 689 # NCBI annotation: putative phage terminase large subunit # Family: family:all:140 # MgeID: mge:1628 # MgeName: VP882 # Cross-refs: genbank:acc:YP_001039815;genbank:gi:126010850;genbank:Ge neID:5076210 Length = 689 Score = 71.2 bits (173), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 82/292 (28%), Positives = 119/292 (40%), Gaps = 35/292 (11%) Query: 137 YQMKGNAPDHQRLMERREDYLAGTIPAGGLLFTAGADVQSYGIYCEGVVFAEDRQSWNVF 196 Y + G P + + R Y AG + G DVQ + VV A + Sbjct: 410 YALTGEVPAWEEVKAMRWSYSAGEVLPGAEKLICTVDVQKNRLVY--VVRAWFPGMGSQL 467 Query: 197 AEFFEGATDNPQAGAWLLLEEFCEQEFPDSHGVLRKIEALAVDSGYRPTQVLEWCRR-RP 255 EF E D + W L E ++E+ +G+ I+A+ VD GYR QV ++ R R Sbjct: 468 VEFGELWGDTEKPDVWDELGELLDREW---YGM--AIDAMGVDCGYRDNQVYQFVREHRT 522 Query: 256 NAYAIKGMPGRGVAAISPPVRKS---VNKRGKRKRHGSAMSWPVGTWALKAEFYGNLHKT 312 A A+ RG + P RK+ V+ RGK ++ G A W T KA + Sbjct: 523 RARAL-----RGFERLPKPYRKTAIDVDSRGKTRKRGDA-RWDFDTGLAKAWVHS----- 571 Query: 313 GLRSGEATDPPGYCHFHMDLGEEYFQQLTAEYFSQKMVKGKLHEEWMPRREHNHFLDCRI 372 R G PG+ +D+ E+Y +Q+ E F+ + K E NHFLDC Sbjct: 572 --RIGWPETRPGFWLLPIDVSEDYCRQIVGEEFNHRTGKWDKVGE-------NHFLDCEA 622 Query: 373 YAMAMAEHLGISRLTKSQWAALRAKHEPETPVDLLSPESQKVAEEVSPDEAP 424 +A L ++R K + E D E Q+ A E S +AP Sbjct: 623 MNYMLACMLRLNRRKGDAMTLKDIKKQGEPAAD----EQQEEAAEQSQPDAP 670 >gi|5978|lcl|protein:vir:95489 Length: 659 # NCBI annotation: Putative large subunit (GpA homolog) of DNA packaging dimer # Family: family:all:140 # MgeID: mge:1574 # MgeName: F10 # Cross-refs: genbank:acc:YP_001293346;genbank:gi:148912767;genbank:Ge neID:5228141 Length = 659 Score = 65.5 bits (158), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 93/398 (23%), Positives = 156/398 (39%), Gaps = 48/398 (12%) Query: 13 GHCRIDRDFRRSDQRF-WYIRCPECGTEQVQE--DANLVINREHLHKTVMRCVS------ 63 G C+I + S +R +YI CP CG EQ + + +++ + S Sbjct: 222 GQCQITKAADESPRRLRYYIPCPHCGHEQTLKWGGKDCAFGVKYIANDLGEASSVWYACE 281 Query: 64 ---CTHHISEMERVPAVQQGRYIPTITG-----------PDRHP-------GFHVDAFMS 102 C+ E V A ++GR+ ++G PD P F+ A S Sbjct: 282 NERCSGTFEHHEMVVASERGRWKCEVSGVWTRDAMEWFGPDDQPIRTPRSVAFYCWAVYS 341 Query: 103 LMMSYEAIAEDKIKYEAKGEAGAKDYSNLICAKPY-QMKGNAPDHQRLMERREDYLAGTI 161 S+ + ++ +K + E K ++N I + + + +G + Q L RRE+Y + Sbjct: 342 TWTSWLDLIDEWLKVKGDREK-LKTFTNTILGEVWVEDEGERVEWQTLYARRENY--PKV 398 Query: 162 PAGGLLFTAGADVQSYGIYCEGVVFAEDRQSWNVFAEFFEGATDNPQAGAWLLLEEFCEQ 221 P L+ G D Q F ++W V G + + + LE + Sbjct: 399 PPQALVLMGGIDTQDDRYEGRVWAFGLGEEAWLVHRFILTGDPASEELRRKVGLE--IHR 456 Query: 222 EFPDSHGVLRKIEALAVDSGYRPTQVLEWCRRRPNAYAIKGMPGRGVAAISPPVRKSVNK 281 +F + GV ++E D+G + +E + + + +P G + P+ + K Sbjct: 457 QFTRADGVPMRVERWCWDAGGHYSDEVEAESIKHGVHWV--VPTFGASTYGKPI-ANFPK 513 Query: 282 RGKRKRHGSAMSWPVGTWALKAEFYGNLHKTGLRSGEATDPPGYCHFHMD---LGEEYFQ 338 R KRK + + + GT K Y L + T PG HF +D E+ + Sbjct: 514 RRKRKVYKTEL----GTDNAKELIYSRLRIDVPIPWQPT--PGCVHFPIDSDICDEDELK 567 Query: 339 QLTAEYFSQKMVKGKLHEEWMPRREHNHFLDCRIYAMA 376 Q+TAE M KG W N LDC +YA+A Sbjct: 568 QITAEKKKSVMAKGVRVLRWDSGGRRNEALDCFVYALA 605 >gi|12290|lcl|protein:vir:79539 Length: 699 # NCBI annotation: putative large terminase subunit # Family: family:all:140 # MgeID: mge:1871 # MgeName: cdtI # Cross-refs: genbank:acc:YP_001272515;genbank:gi:148609384;genbank:Ge neID:5204375 Length = 699 Score = 39.7 bits (91), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 112/479 (23%), Positives = 176/479 (36%), Gaps = 78/479 (16%) Query: 10 EGPGHCRIDRDFRRSDQRFWYIRCPECGTE-QVQEDANLVINRE-----HLHKTVMRCVS 63 E P I + R D+R WY CP CG Q DA E + C Sbjct: 225 EAPPTTGILSLYNRGDRRRWYWPCPHCGEYFQPAMDAMTGYRNEPDPFKASEAAYLLCPH 284 Query: 64 CTHHISEMERVPAVQQGRYIPTITGPDRHPGFHVDAFMSLMMS---------YEAIAEDK 114 C+ I+ ++ G ++ DR+ + S + S Y+ A+ Sbjct: 285 CSGIITAEKKRELNSAGVWLREGQVIDRNGNVSGEPRRSRIASFWMEGPAAAYQTWAQLV 344 Query: 115 IK-------YEAKG-EAGAKDYSNLICAKPYQMKGNAPDHQR--LMERREDYLAGTIPAG 164 K YEA G E + N PY + + + L +R E + ++P G Sbjct: 345 YKLLTAEQEYEATGSEETLRAVINTDWGLPYLPRASMEQRKSELLEQRAEPVPSRSVPDG 404 Query: 165 GLLFTAGADVQSYGIYCEGVV----FAEDRQSWNV----FAEFFEGATD------NPQA- 209 A DVQ+ G + VV + + W + + G +D +P + Sbjct: 405 VNFLVAAVDVQA-GRHRRFVVQVTGYGSRGERWIIDRYNITQSLRGDSDGESQRIDPASY 463 Query: 210 -GAW-LLLEEFCEQEFP---DSHGVLRKIEALAVDSG------YRPTQVLEWCRRR---P 255 W +LL + + +P D +R + A+AVDSG + CRR Sbjct: 464 PEDWDVLLTDVFHKSWPLASDPSQQMR-LMAMAVDSGGEDGVTDNAYKFWRRCRRDGLGK 522 Query: 256 NAYAIKGMPGRGVAAISPPVRKSVNKRGKRKRH-GSAMSWPVGTWALKAEFYGNLHKTGL 314 Y KG R I+ + + G+R + G W + T ALK L + Sbjct: 523 RIYLFKGDSIRRAKLITRTFPDNTGRTGRRAQAAGDVPLWLLQTDALKDRVNNALWRD-- 580 Query: 315 RSGEATDPPGYCHFHMDLGEEYFQQLTAEYFSQKMVKGKLHEEWMPRREHNHFLDCRIYA 374 + PGY HF LG ++ +LT E ++ GK + P R N D +YA Sbjct: 581 -----SPGPGYVHFPDWLGSWFYDELTYE---ERSSDGKWSK---PGRGANEAFDLMVYA 629 Query: 375 MAMAEHLGISRLTKSQWAALRAKHEPETPVDLLSPESQKVAEEVSPDEAPVAPPPPAKK 433 A+ G ++ +W ET ++ + P+S E SP PV+ P +K Sbjct: 630 EALVILHGYEKI---RWPDAPEWASRETWLECV-PDST----EPSPSPEPVSTPVKKQK 680 >gi|24325|lcl|protein:vir:100809 Length: 488 # NCBI annotation: hypothetical protein # Family: family:all:1430 # MgeID: mge:1633 # MgeName: LP65 # Cross-refs: genbank:acc:YP_164748;genbank:gi:56693161;genbank:GeneID :3197442 Length = 488 Score = 30.8 bits (68), Expect = 0.030, Method: Compositional matrix adjust. Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 2/40 (5%) Query: 17 IDRDFRRSDQRFWYIRCPECG-TEQVQEDANL-VINREHL 54 ID + SDQR W RC CG +Q+ + N+ +IN++ + Sbjct: 98 IDLKYAESDQRKWVYRCQHCGLVQQLDYEKNIKLINKDGI 137 >gi|13903|lcl|protein:vir:9870 Length: 273 # NCBI annotation: putative terminase large subunit # Family: family:all:54 # MgeID: mge:177 # MgeName: 315.5 # Cross-refs: genbank:acc:NP_795632;genbank:gi:28876409;genbank:GeneID :1257943 Length = 273 Score = 25.4 bits (54), Expect = 1.3, Method: Compositional matrix adjust. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%) Query: 311 KTGLRSGEATDPPGYCHFHMDLGEEYFQQLTAEYFSQKMVKGKLHEEWM 359 + G+ G ATDP + +H D + + EY+ QK+ +L +W+ Sbjct: 108 RNGIDYGYATDPLAFVRWHYDKKKNGIYAID-EYYGQKISNRQL-AKWL 154 >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 = 25.0 bits (53), Expect = 2.0, Method: Compositional matrix adjust. Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 4/40 (10%) Query: 363 EHNHFLDCRIYAMA--MAEHLGISRLTKSQWAALRAKHEP 400 E+ H LDC ++A+ + I ++TKS AA+R ++P Sbjct: 537 ENEHILDCIVFALYGFTKYYDDILKVTKS--AAVRTINQP 574 >gi|19767|lcl|protein:vir:6384 Length: 677 # NCBI annotation: terminase large subunit TerL # Family: family:all:140 # MgeID: mge:133 # MgeName: BcepNazgul # Cross-refs: genbank:acc:NP_918997;genbank:gi:34610172;genbank:gi:912 14212;genbank:GeneID:2559603 Length = 677 Score = 23.5 bits (49), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Query: 21 FRRSDQRFWYIRCPECG 37 + R D+R Y +CP CG Sbjct: 230 YNRGDRRRRYWKCPHCG 246 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 0.319 0.135 0.428 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 209,011 Number of Sequences: 514 Number of extensions: 9538 Number of successful extensions: 36 Number of sequences better than 100.0: 10 Number of HSP's better than 100.0 without gapping: 8 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 18 Number of HSP's gapped (non-prelim): 14 length of query: 443 length of database: 206,069 effective HSP length: 74 effective length of query: 369 effective length of database: 168,033 effective search space: 62004177 effective search space used: 62004177 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: 38 (19.2 bits)