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= 0568.0002.p (676 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC2673 [L] COG0272 NAD-dependent DNA ligase (contains BRCT doma... 629 e-180 CAC1195 [L] COG0272 NAD-dependent DNA ligase (contains BRCT doma... 536 e-152 STM2427 [L] COG0272 NAD-dependent DNA ligase (contains BRCT doma... 431 e-120 ZilvI [EH] COG0028 Thiamine pyrophosphate-requiring enzymes [ace... 431 e-120 TM0029 [EP] COG1173 ABC-type dipeptide/oligopeptide/nickel trans... 431 e-120 >CAC2673 [L] COG0272 NAD-dependent DNA ligase (contains BRCT domain type II) Length = 669 Score = 629 bits (1623), Expect = e-180, Method: Compositional matrix adjust. Identities = 329/654 (50%), Positives = 435/654 (66%), Gaps = 11/654 (1%) Query: 13 IEELVAELNQYNYHYYTLDAPQVSDKEYDVLYDKLVALEAESGIILPHSPTQRVGGELLK 72 ++EL+ ELN+Y+Y YY LD P V+DKEYD YD+LV LE ++GI P+SPT RVG +LK Sbjct: 11 MQELIEELNKYSYSYYVLDNPIVADKEYDKRYDELVELEEKTGITYPYSPTNRVGDVILK 70 Query: 73 GFTPHRHLAPLWSLDKAQNIEQLRSWHTRVLKLVNDYNSKNPENPLPEPCYAVELKFDGL 132 F + H + LWSLDKAQ+ E++ WH R K V +YNS N E+ LPE Y + KFDGL Sbjct: 71 QFQKYTHKSRLWSLDKAQSFEEIIDWHNRNKKAVAEYNS-NHEDKLPELKYVLTKKFDGL 129 Query: 133 TLNLTYRD-GTLVQAATRGNGVTGEGILAQVKTIKSVPLTIPFKEG-VIEVQGEGIMNLS 190 T+N TY + G +++AATRG GV GE I +Q KTIKS+PL I K G V+EV GE IM + Sbjct: 130 TINCTYDESGVMIKAATRGTGVIGEDITSQAKTIKSIPLKI--KNGSVVEVHGEAIMTKT 187 Query: 191 VLADYNTRAAEPLKXXXXXXXXXXXXXXPKTTAERRLNAFFYNIGYAEGVQFSDHQEMMD 250 +YN +A PLK + TA R L+AFFY++GY EG F + EMM+ Sbjct: 188 AFNEYNKKAEVPLKNLRNGAAGALRNLNVRETARRNLSAFFYDVGYNEGKAFKSYMEMMN 247 Query: 251 FLRTNRFKVNPYLTYFDKFDDVTEQLAEIEESRSGLDYLIDGAVIKVTDFRIREVLGYTD 310 F++ F V+ YL + +++ +++ + + RS LDY IDG VI + D+R RE LGYT Sbjct: 248 FIKEMGFPVDEYLKECNTIEEINKEIQYVGDIRSSLDYDIDGVVIVIDDYRTREYLGYTV 307 Query: 311 KFPRWAVAYKFEAEETTTVLESVSWNVGRTGKVTPLARVEAVELAGVTVQNCTLNNVGDI 370 KFP+WA+AYKFEAEE TT L V WNVGR+G+V+P A +E VELAGV V+ TLNN+ DI Sbjct: 308 KFPKWAIAYKFEAEEATTKLLDVEWNVGRSGRVSPTAILEPVELAGVIVKRATLNNMDDI 367 Query: 371 ERKNLKHALGTRVFIRRSNDVIPEILG-KVTEESDGGEIIFPVDCPACGFPLEMRGAHLF 429 RK +K +G+RVF+RRSNDVIPEI+G E + EI P CP CG + G HLF Sbjct: 368 GRKKVK--IGSRVFVRRSNDVIPEIMGVTEETEGETNEIEAPTICPYCGSEIVKEGVHLF 425 Query: 430 CNNKLNCKPQIIGRITHFASRDAMDIETFSDKTAGQLYEELAVREPADLYELTFEQLVKL 489 C N L+CKPQ++ I HFASR+AM+IE FS+KTA QL+E+L ++ +DLY +T E+L+ L Sbjct: 426 CENTLSCKPQMVKSIVHFASREAMNIEGFSEKTAEQLFEKLNIKSISDLYRITKEELMSL 485 Query: 490 ERFGEKKAANLLKALEESKGRDLASFLYALGIPNTGKATTRMLADHYRSLEGVMKATAEE 549 ++F +KKA+NL+ A+E+SK DLASF+Y+LGIPN GK T L ++S E + KA+ +E Sbjct: 486 DKFKDKKASNLINAIEKSKKCDLASFVYSLGIPNVGKKTATDLCKQFKSFENIKKASYDE 545 Query: 550 LSGLPDIGGIVAESIVSFFADPFVVTSINRMLELGVEAKAPEAPRQVSTDSFFSGKTVVL 609 L + DIG IVAESIV FF + S+N + ELGV P ++ F+GKTVV Sbjct: 546 LILVQDIGSIVAESIVEFFKQEKIEKSLNELFELGV---TPFYEESEVVENAFTGKTVVA 602 Query: 610 TGSLQKLTXXXXXXXXXXXXXKVSGSVSKKTDLVIAGEKAGSKLAKAQQLGIQV 663 TG+LQ + V+GSVSKKTD VIAGE AGSK KA QLG+++ Sbjct: 603 TGTLQNYSRTAIKEKLESLGANVAGSVSKKTDYVIAGENAGSKYDKAVQLGVKI 656 >CAC1195 [L] COG0272 NAD-dependent DNA ligase (contains BRCT domain type II) Length = 663 Score = 536 bits (1380), Expect = e-152, Method: Compositional matrix adjust. Identities = 296/658 (44%), Positives = 408/658 (62%), Gaps = 13/658 (1%) Query: 10 MHTIEELVAELNQYNYHYYTLDAPQVSDKEYDVLYDKLVALEAESGIILPHSPTQRVGGE 69 M IE+L+ +LN+Y+Y YY LD P V+DKEYD++YD+L LE E+ I P+SPTQRVG Sbjct: 1 MKLIEDLIEKLNKYSYSYYVLDNPIVADKEYDIMYDELKRLEEETEYINPNSPTQRVGDI 60 Query: 70 LLKGFTPHRHLAPLWSLDKAQNIEQLRSWHTRVLKLVNDYNSKNPENPLPEPCYAVELKF 129 +L F H LWSLDKAQ ++++++ + +K V YN + E LP P + V K Sbjct: 61 ILDKFEKTHHKNKLWSLDKAQKKDEVKAFVNKCVKFVEQYNLTHSE-KLPSPQFVVTQKL 119 Query: 130 DGLTLNLTYRDGTLVQAATRGNGVTGEGILAQVKTIKSVPLTIPFKEGVIEVQGEGIMNL 189 DGLT+N +Y + L+++ATRG G GE I Q KTI ++P I + G I+V GE +M Sbjct: 120 DGLTINCSYNESRLIKSATRGTGEIGEDITEQSKTILNLPNAINY-SGEIDVHGEALMTK 178 Query: 190 SVLADYNTRAA---EPLKXXXXXXXXXXXXXXPKTTAERRLNAFFYNIGYAEGVQFSDHQ 246 + L YN+ PLK K TA R+L A FY++ Y + + + Sbjct: 179 NALEQYNSNLKVNETPLKNLRNGAAGALRNLNIKETARRKLVAQFYDLSYTDK-KLKKYS 237 Query: 247 EMMDFLRTNRFKVNPYLTYFDKFDDVTEQLAEIEESRSGLDYLIDGAVIKVTDFRIREVL 306 E++ FL++ F + Y + FD++ + + I E RS L Y IDG VI++ D ++ Sbjct: 238 EILLFLKSQGFNITEY-NICNNFDEINQAIDNIGEVRSSLQYDIDGVVIRLNDIETSRLM 296 Query: 307 GYTDKFPRWAVAYKFEAEETTTVLESVSWNVGRTGKVTPLARVEAVELAGVTVQNCTLNN 366 GYT K P++A+AYKF+A+ETTT L V WNVGR+G++ P A +E VELAGV V+ TLNN Sbjct: 297 GYTIKCPKYAIAYKFKAKETTTKLIDVEWNVGRSGRINPTAILEPVELAGVIVKRATLNN 356 Query: 367 VGDIERKNLKHALGTRVFIRRSNDVIPEILG-KVTEESDGGEIIFPVDCPACGFPLEMRG 425 + + K K G RVF+RRSNDVIPEI+G E + EI P CP CG + G Sbjct: 357 MD--DIKRKKIKKGARVFLRRSNDVIPEIMGVTEETEGETKEIEAPTICPYCGSEIVKEG 414 Query: 426 AHLFCNNKLNCKPQIIGRITHFASRDAMDIETFSDKTAGQLYEELAVREPADLYELTFEQ 485 HLFC N L+CKPQ++ I HFASR AM+IE FS+KTA QL+E+L ++ +DLY +T E+ Sbjct: 415 VHLFCENTLSCKPQMVKSIVHFASRKAMNIEGFSEKTAEQLFEKLNIKSISDLYRITKEE 474 Query: 486 LVKLERFGEKKAANLLKALEESKGRDLASFLYALGIPNTGKATTRMLADHYRSLEGVMKA 545 L+ L++F +KKA+NL+ A+E+SK DL SF+Y+LGIPN GK T L ++S E + KA Sbjct: 475 LMSLDKFKDKKASNLINAIEKSKECDLDSFVYSLGIPNVGKKTATDLCKQFKSFENIKKA 534 Query: 546 TAEELSGLPDIGGIVAESIVSFFADPFVVTSINRMLELGVEAKAPEAPRQVSTDSFFSGK 605 + EL + DIG IVA+SIV FF + S+N + +LGV+ P ++S F+ K Sbjct: 535 SYFELILVQDIGSIVAKSIVDFFKQEKIEKSLNELFKLGVK---PSYEESEVSESVFNDK 591 Query: 606 TVVLTGSLQKLTXXXXXXXXXXXXXKVSGSVSKKTDLVIAGEKAGSKLAKAQQLGIQV 663 TVV TGSLQ + KV+GSVSKKTD VIAGE AGSK KA LG+++ Sbjct: 592 TVVATGSLQNYSRTEIKEKLESLGAKVAGSVSKKTDYVIAGENAGSKYDKAVALGVKI 649 >STM2427 [L] COG0272 NAD-dependent DNA ligase (contains BRCT domain type II) Length = 671 Score = 431 bits (1108), Expect = e-120, Method: Compositional matrix adjust. Identities = 268/670 (40%), Positives = 371/670 (55%), Gaps = 29/670 (4%) Query: 9 VMHTIEELVAELNQYNYHYYTLDAPQVSDKEYDVLYDKLVALEAES-GIILPHSPTQRVG 67 + + EL L + Y Y+ +DAP++ D EYD L +L LEA+ +I P SPTQRVG Sbjct: 4 IEQQLTELRTTLRHHEYLYHVMDAPEIPDAEYDRLMRELRELEAQRPDLITPDSPTQRVG 63 Query: 68 GELLKGFTPHRHLAPLWSLDKAQNIEQLRSWHTRVLKLVNDYNSKNPENPLPEPCYAVEL 127 L F RH P+ SLD + E +++ RV + K+ EN + + EL Sbjct: 64 AAPLTAFNQIRHEVPMLSLDNVFDEESFLAFNKRVQDRL-----KSTENVI----WCCEL 114 Query: 128 KFDGLTLNLTYRDGTLVQAATRGNGVTGEGILAQVKTIKSVPL-----TIPFKEGVIEVQ 182 K DGL +++ Y +G LV AATRG+G TGE I + V+TI+++PL IP + +EV+ Sbjct: 115 KLDGLAVSILYENGVLVSAATRGDGTTGEDITSNVRTIRAIPLKLHGDNIPAR---LEVR 171 Query: 183 GEGIMNLSVLADYNTRA----AEPLKXXXXXXXXXXXXXXPKTTAERRLNAFFYNIGYAE 238 GE + + N A + P+ TA+R L F Y +G E Sbjct: 172 GEVFLPQAGFEKINEDARRTGGKVFANPRNAAAGSLRQLDPRITAKRPLTFFCYGVGILE 231 Query: 239 GVQFSD-HQEMMDFLRTNRFKVNPYLTYFDKFDDVTEQLAEIEESRSGLDYLIDGAVIKV 297 G + D H + + V+ +T D V + +E+ R L + IDG VIKV Sbjct: 232 GGELPDTHLGRLLQFKAWGLPVSDRVTLCDSPQAVLDFYHNVEKDRPTLGFDIDGVVIKV 291 Query: 298 TDFRIREVLGYTDKFPRWAVAYKFEAEETTTVLESVSWNVGRTGKVTPLARVEAVELAGV 357 ++E+LG+ + PRWAVA+KF A+E T + V + VGRTG +TP+AR+E V++AGV Sbjct: 292 NSLALQELLGFVARAPRWAVAFKFPAQEQMTFVRDVEFQVGRTGAITPVARLEPVQVAGV 351 Query: 358 TVQNCTLNNVGDIERKNLKHALGTRVFIRRSNDVIPEILGKVTEE--SDGGEIIFPVDCP 415 V N TL+N +IER L+ +G +V IRR+ DVIP+++ V E + I+FP CP Sbjct: 352 LVSNATLHNADEIERLGLR--IGDKVVIRRAGDVIPQVVNVVLSERPEETRPIVFPTHCP 409 Query: 416 ACGFPLE-MRG-AHLFCNNKLNCKPQIIGRITHFASRDAMDIETFSDKTAGQLYEELAVR 473 CG +E + G A C L C Q + HF SR AMD++ DK QL E V Sbjct: 410 VCGSDVERVEGEAVTRCTGGLICGAQRKESLKHFVSRRAMDVDGMGDKIIDQLVEREYVH 469 Query: 474 EPADLYELTFEQLVKLERFGEKKAANLLKALEESKGRDLASFLYALGIPNTGKATTRMLA 533 PADL+ LT +L L+R G K A N++ ALE+SK A FLYALGI G+AT LA Sbjct: 470 TPADLFRLTAGKLTGLDRMGPKSAQNVVNALEKSKTTTFARFLYALGIREVGEATAAGLA 529 Query: 534 DHYRSLEGVMKATAEELSGLPDIGGIVAESIVSFFADPFVVTSINRMLELGVEAKAPEAP 593 ++ +LE + AT +EL +PD+G +VA + +FFA+ I ++L GV AP Sbjct: 530 AYFGTLEALQAATIDELQKVPDVGIVVATHVFNFFAEESNRDVIGQLLAEGVHWPAPVVI 589 Query: 594 RQVSTDSFFSGKTVVLTGSLQKLTXXXXXXXXXXXXXKVSGSVSKKTDLVIAGEKAGSKL 653 DS F+GKTVVLTGSL +++ KV+GSVSKKTDLVIAGE AGSKL Sbjct: 590 NVQEIDSPFAGKTVVLTGSLSQMSRDDAKARLVALGAKVAGSVSKKTDLVIAGEAAGSKL 649 Query: 654 AKAQQLGIQV 663 AKAQ+LGI V Sbjct: 650 AKAQELGITV 659 >ZilvI [EH] COG0028 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] Length = 211 Score = 431 bits (1107), Expect = e-120, Method: Compositional matrix adjust. Identities = 0/674 (0%), Positives = 0/674 (0%), Gaps = 35/674 (5%) Query: 10 MHTIEELVAELN----QYNYHYYTLDAPQVSDKEYDVLYDKLVALEAESG-IILPHSPTQ 64 M+ + L + + +L + + L Sbjct: 1 MNKAKRLEILTRLRENNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANT 60 Query: 65 RVGGELLKGFTPHRHLAPLWSLDKAQNIEQLRSWHTRVLKLVNDYNSKNPENPLPEPCYA 124 L ++ + + + PE + Sbjct: 61 PAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNG-----EVPE----DRAAL 111 Query: 125 VELKFDGLTLNLTYRDGTLVQAATRGNGVTGEGILAQVKTIKSVPL-----TIPFKEGVI 179 L G + + + Sbjct: 112 EALPGVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVV---P 168 Query: 180 EVQGEGIMNLSVLADYNTRA----AEPLKXXXXXXXXXXXXXXPKTTAERRLNAFFYNIG 235 + +L T Sbjct: 169 AEFKVDCHHWLILHGRYTCIARKP 228 Query: 236 YAEGVQFSDHQ--EMMDFLRTNRFKVNPYLTYFDKFDDVTEQLAEIEESRSGLDYLIDGA 293 Sbjct: 229 - 287 Query: 294 VIKVTDFRIREVLGYTDKFPRWAVAYKFEAEETTTVLESVSWNVGRTGKVTPLARVEAVE 353 Sbjct: 288 347 Query: 354 LAGVTVQNCTLNNVGDIERKNLKHALGTRVFIRRSNDVIPEILGKVTEE--SDGGEIIFP 411 Sbjct: 348 -- 405 Query: 412 VDCPACGFPLE-MRG-AHLFCNNKLNCKPQIIGRITHFASRDAMDIETFSDKTAGQLYEE 469 Sbjct: 406 465 Query: 470 LAVREPADLYELTFEQLVKLERFGEKKAANLLKALEESKGRDLASFLYALGIPNTGKATT 529 Sbjct: 466 525 Query: 530 RMLADHYRSLEGVMKATAEELSGLPDIGGIVAESIVSFFADPFVVTSINRMLELGVEAKA 589 Sbjct: 526 585 Query: 590 PEAPRQVSTDSFFSGKTVVLTGSLQKLTXXXXXXXXXXXXXKVSGSVSKKTDLVIAGEKA 649 Sbjct: 586 645 Query: 650 GSKLAKAQQLGIQV 663 Sbjct: 646 659 >TM0029 [EP] COG1173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components Length = 280 Score = 431 bits (1107), Expect = e-120, Method: Compositional matrix adjust. Identities = 0/674 (0%), Positives = 0/674 (0%), Gaps = 35/674 (5%) Query: 10 MHTIEELVAELN----QYNYHYYTLDAPQVSDKEYDVLYDKLVALEAESG-IILPHSPTQ 64 M N + + + + + + E T Sbjct: 1 MFRTMIRPLFKNKKFIIGFSIFLFFLFLGIFGPMFYRVDPTEMTWDYEQPPSSAHPLGTD 60 Query: 65 RVGGELLKGFTPHRHLAPLWSLDKAQNIEQLRSWHTRVLKLVNDYNSKNPENPLPEPCYA 124 G ++L + A + + + + + Sbjct: 61 TYGRDVLAQLLHGIRSSLYIGFLAAIISLVIGTIIGSFSAVK-----RGIV----DDVLM 111 Query: 125 VELKFDGLTLNLTYRDGTLVQAATRGNGVTGEGILAQVKTIKSVPL-----TIPFKEGVI 179 T ++ R + + + + ++ + Sbjct: 112 GITNIVLTTPSILIAILIASYLKVRSVEMVAVILGLFQWPWFARAIRAQLMSVMSR---E 168 Query: 180 EVQGEGIMNLSVLADYNTRA----AEPLKXXXXXXXXXXXXXXPKTTAERRLNAFFYNIG 235 V + S L A + ++G Sbjct: 169 YVYLSVMAGYSDLRLVIEDLIPTIATYAFMSFVLFINGGIMGEAGLSLIGLGPTQGISLG 228 Query: 236 YAEGVQFSDHQ--EMMDFLRTNRFKVNPYLTYFDKFDDVTEQLAEIEESRSGLDYLIDGA 293 + + Sbjct: 229 IMLQWAVLMEAVRRGLWWWFVP- 287 Query: 294 VIKVTDFRIREVLGYTDKFPRWAVAYKFEAEETTTVLESVSWNVGRTGKVTPLARVEAVE 353 Sbjct: 288 347 Query: 354 LAGVTVQNCTLNNVGDIERKNLKHALGTRVFIRRSNDVIPEILGKVTEE--SDGGEIIFP 411 Sbjct: 348 -- 405 Query: 412 VDCPACGFPLE-MRG-AHLFCNNKLNCKPQIIGRITHFASRDAMDIETFSDKTAGQLYEE 469 Sbjct: 406 465 Query: 470 LAVREPADLYELTFEQLVKLERFGEKKAANLLKALEESKGRDLASFLYALGIPNTGKATT 529 Sbjct: 466 525 Query: 530 RMLADHYRSLEGVMKATAEELSGLPDIGGIVAESIVSFFADPFVVTSINRMLELGVEAKA 589 Sbjct: 526 585 Query: 590 PEAPRQVSTDSFFSGKTVVLTGSLQKLTXXXXXXXXXXXXXKVSGSVSKKTDLVIAGEKA 649 Sbjct: 586 645 Query: 650 GSKLAKAQQLGIQV 663 Sbjct: 646 659 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.317 0.135 0.386 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 46,412,947 Number of extensions: 2003194 Number of successful extensions: 16731 Number of sequences better than 1.0e-05: 1407 Number of HSP's gapped: 6919 Number of HSP's successfully gapped: 1407 Length of query: 676 Length of database: 38,378,431 Length adjustment: 113 Effective length of query: 563 Effective length of database: 25,345,689 Effective search space: 14269622907 Effective search space used: 14269622907 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 119 (50.4 bits)