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= 0047.0001.p (368 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B9E263.1 B9E263_CLOK1 Putative uncharacterized protein 314 9e-84 A5N8R3.1 A5N8R3_CLOK5 UvrABC-related protein, protein C 314 1e-83 B3K426.1 B3K426_9BACI Excinuclease ABC C subunit domain protein 312 4e-83 A6M201.1 A6M201_CLOB8 Excinuclease ABC, C subunit domain protein 304 1e-80 Q97DK7.1 Q97DK7_CLOAB Excinuclease ABC, subunit C (UvrC) 291 1e-76 >B9E263.1 B9E263_CLOK1 Putative uncharacterized protein Length = 363 Score = 314 bits (804), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 154/342 (45%), Positives = 222/342 (64%), Gaps = 4/342 (1%) Query: 1 MNLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNI 60 M+L EK+ LP SPGVYLMKDSL IIYVGK+K LK R+ SYF N+K H+PKV +LV+N+ Sbjct: 3 MDLKEKIKELPSSPGVYLMKDSLNSIIYVGKSKNLKNRIASYFQNSKSHTPKVLKLVKNL 62 Query: 61 RDFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPA 120 RDFDY LTDTEFEAFMLEC+LIK+IKP+YNK+MKN AY Y I+ + Y + ++ + Sbjct: 63 RDFDYILTDTEFEAFMLECKLIKQIKPIYNKQMKNTQAYCY--IKINQKYPDIKISNEYV 120 Query: 121 EYGDSLYFGPYTSRSTVERAVQGIKESQRILCSTPHARNALCLNHSXXXXXXXXXXXEAL 180 + +LYFGPY SR+TVER +QGIKE +I CS + + CLN+S Sbjct: 121 KNDGNLYFGPYPSRNTVERGIQGIKECCKIFCSNNFKKASYCLNYSLDLCLGMCLDSTVE 180 Query: 181 ERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEKV 240 ++Y I+D + LLNG D IL+E++ M+ A++ F FE AAKYRDY ++V LL + + Sbjct: 181 KQYSTILDKIINLLNGTDKSILKEMEYTMNKASDKFNFENAAKYRDYISSVNYLLNRANI 240 Query: 241 IGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFS 300 F ++NKNI LE ++ +K LI+G++++ + ++ ++L +++ + F+ Sbjct: 241 CKFVKKNKNIAFLEHLEHNNIKFFLIKGNKVIFSKKYYLENIDFQKLKSSVKSNILFYFN 300 Query: 301 KPPHGEPGEISRHKLDEAQIIYSYLTGSS--GSYAVIPQEWL 340 + E+ + K+DE+QIIYSYL S +Y VI +WL Sbjct: 301 NKAIKKSIELHKEKMDESQIIYSYLRSKSINRTYVVISSKWL 342 >A5N8R3.1 A5N8R3_CLOK5 UvrABC-related protein, protein C Length = 361 Score = 314 bits (804), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/342 (45%), Positives = 222/342 (64%), Gaps = 4/342 (1%) Query: 1 MNLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNI 60 M+L EK+ LP SPGVYLMKDSL IIYVGK+K LK R+ SYF N+K H+PKV +LV+N+ Sbjct: 1 MDLKEKIKELPSSPGVYLMKDSLNSIIYVGKSKNLKNRIASYFQNSKSHTPKVLKLVKNL 60 Query: 61 RDFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPA 120 RDFDY LTDTEFEAFMLEC+LIK+IKP+YNK+MKN AY Y I+ + Y + ++ + Sbjct: 61 RDFDYILTDTEFEAFMLECKLIKQIKPIYNKQMKNTQAYCY--IKINQKYPDIKISNEYV 118 Query: 121 EYGDSLYFGPYTSRSTVERAVQGIKESQRILCSTPHARNALCLNHSXXXXXXXXXXXEAL 180 + +LYFGPY SR+TVER +QGIKE +I CS + + CLN+S Sbjct: 119 KNDGNLYFGPYPSRNTVERGIQGIKECCKIFCSNNFKKASYCLNYSLDLCLGMCLDSTVE 178 Query: 181 ERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEKV 240 ++Y I+D + LLNG D IL+E++ M+ A++ F FE AAKYRDY ++V LL + + Sbjct: 179 KQYSTILDKIINLLNGTDKSILKEMEYTMNKASDKFNFENAAKYRDYISSVNYLLNRANI 238 Query: 241 IGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFS 300 F ++NKNI LE ++ +K LI+G++++ + ++ ++L +++ + F+ Sbjct: 239 CKFVKKNKNIAFLEHLEHNNIKFFLIKGNKVIFSKKYYLENIDFQKLKSSVKSNILFYFN 298 Query: 301 KPPHGEPGEISRHKLDEAQIIYSYLTGSS--GSYAVIPQEWL 340 + E+ + K+DE+QIIYSYL S +Y VI +WL Sbjct: 299 NKAIKKSIELHKEKMDESQIIYSYLRSKSINRTYVVISSKWL 340 >B3K426.1 B3K426_9BACI Excinuclease ABC C subunit domain protein Length = 368 Score = 312 bits (799), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 165/345 (47%), Positives = 225/345 (65%), Gaps = 7/345 (2%) Query: 3 LAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNIRD 62 + K+ LPLSPGVYLM+DS G +IYVGK+K LKKRVQSYFYN K HSPKVK+LV++++D Sbjct: 1 MKTKIQELPLSPGVYLMRDSRGTVIYVGKSKSLKKRVQSYFYNNKSHSPKVKRLVQHVKD 60 Query: 63 FDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAV--TYDPA 120 ++ +TDTEFEAFMLEC+LI++IKPMYN+KMKNPL YSYIV+R +R L + T D Sbjct: 61 LEHIVTDTEFEAFMLECRLIQDIKPMYNRKMKNPLGYSYIVLRQKRDWRWLEITDTLDEG 120 Query: 121 EYGDSLYFGPYT-SRSTVERAVQGIKESQRILCS-TPHAR--NALCLNHSXXXXXXXXXX 176 + S +FGPYT SR ++E AVQ +KE +I C+ P A N CLN+S Sbjct: 121 THEPSRFFGPYTASRHSLEHAVQKVKECCKIACNHAPAASSANTPCLNYSIGLCLGKCLG 180 Query: 177 XEALERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQ 236 E+ +++ ++D LL G+D R+ +E+++ M AAE F+FE AAKYRD AV LL Sbjct: 181 GESARQFDEVMDRFIALLQGDDRRLYDEMERTMLGAAERFDFEQAAKYRDGMEAVNLLLS 240 Query: 237 KEKVIGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLD-AGQMNAEQLCGIIQAAV 295 K VI F E+N +IVV E + E +KL LI+G+ +L R A + E L ++A + Sbjct: 241 KRDVIEFAEENHSIVVYEYLNEDTIKLFLIKGNVVLHSERCSVATTADIESLRQRVKALI 300 Query: 296 QDSFSKPPHGEPGEISRHKLDEAQIIYSYLTGSSGSYAVIPQEWL 340 F++ P + E++R +D AQIIYSYL S+ Y V+ WL Sbjct: 301 LSYFTRDPESDAAEVTRQDIDAAQIIYSYLQSSACRYLVLQDSWL 345 >A6M201.1 A6M201_CLOB8 Excinuclease ABC, C subunit domain protein Length = 366 Score = 304 bits (778), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 159/343 (46%), Positives = 230/343 (67%), Gaps = 6/343 (1%) Query: 1 MNLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNI 60 M+L EKV LP SPGVYLMKDSL ++IYVGK+K LK RV SYF N+K HSPK+ +LV+N+ Sbjct: 3 MDLKEKVKKLPSSPGVYLMKDSLNNVIYVGKSKNLKSRVGSYFINSKSHSPKILKLVQNL 62 Query: 61 RDFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPA 120 +DF+YK+TDTEFEAF+LEC+LIK+IKP YN+ MKNP +YSYI I + Y + ++++ Sbjct: 63 KDFEYKITDTEFEAFLLECELIKKIKPAYNRLMKNPKSYSYIKIVLNEKYPNIEISHESN 122 Query: 121 EYGDSLYFGPYTSRSTVERAVQGIKESQRILCSTPHARNALCLNHSXXXXXXXXXXXEAL 180 E ++YFGPY+ ++ E+ + GIKE +I CS + + C N+S Sbjct: 123 ETDGNIYFGPYSRKNIAEKGLYGIKEYCKIQCSINQRKTSSCFNYSLGLCIGMCLDTTPR 182 Query: 181 ERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEKV 240 E Y I++ + LLNGND IL+E++ M+ A+E F+FETAAKYRDY ++V LL+K K+ Sbjct: 183 EEYLNILNKIINLLNGNDKIILQEMEHIMNSASEKFDFETAAKYRDYISSVNYLLEKIKI 242 Query: 241 IGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFS 300 I FT++N+NI +LE + +K LIRG++IL + + E GI++ + F+ Sbjct: 243 IKFTKKNRNIALLEYLDNDRVKFFLIRGNKILFSEKYILKNFDLEAFKGILKDNILFYFN 302 Query: 301 KPPHGE-PGEISRHKLDEAQIIYSYLTGSSGS--YAVIPQEWL 340 +G+ P EI + ++DE+QIIY+YL S S + +IP+EWL Sbjct: 303 ---NGDVPIEIGKEEIDESQIIYTYLKNKSNSCKHIIIPEEWL 342 >Q97DK7.1 Q97DK7_CLOAB Excinuclease ABC, subunit C (UvrC) Length = 373 Score = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 142/342 (41%), Positives = 218/342 (63%), Gaps = 3/342 (0%) Query: 1 MNLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNI 60 M + EK+ LP +PGVYLMKDSL IIYVGK+K L+ RVQSYF N+K HS KV +LV+N+ Sbjct: 1 MEIKEKIRKLPSAPGVYLMKDSLNTIIYVGKSKNLRSRVQSYFVNSKSHSSKVLKLVKNL 60 Query: 61 RDFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPA 120 +DFDY +TDTEFEA +LEC+LIK IKP+YN++MK+P Y YI I+ D Y + + + Sbjct: 61 KDFDYIVTDTEFEALLLECKLIKRIKPIYNRQMKSPKGYCYIKIKLDEKYPSVEIKSNDE 120 Query: 121 EYGDSLYFGPYTSRSTVERAVQGIKESQRILCSTPHARNALCLNHSXXXXXXXXXXXEAL 180 G+SLYFGPYTS+STVE+A+ GIKE +ILC+ + + CL +S + Sbjct: 121 RVGESLYFGPYTSKSTVEKALYGIKEHMKILCTNSSKKASGCLKYSTGLCLGMCTANPSF 180 Query: 181 ERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEKV 240 E Y +I+ + LL+G D I+ E++++M++A+ NF+FE AAKYRD+ ++ L K+ Sbjct: 181 EYYSSLIEKIIELLSGKDITIVGEMEKKMNIASNNFDFENAAKYRDFIKSINYLTSTAKI 240 Query: 241 IGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFS 300 I F E+NKNIV++E + + +K L+R +++L + + +++ I+ + Sbjct: 241 INFIEENKNIVLVELLNNEEIKCFLLRYNKLLFCEKYKLSDFSVKEIKHKIKLKIMLHLC 300 Query: 301 KPPHGEPGEISRHKLDEAQIIYSYLTG--SSGSYAVIPQEWL 340 + + ++++DE IIY+YL S+ Y I ++W+ Sbjct: 301 GDLNNIVN-VGKNEIDEVHIIYNYLKSKESTCRYIAIKEQWI 341 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.318 0.135 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,981,628,894 Number of extensions: 75568354 Number of successful extensions: 182878 Number of sequences better than 1.0e-05: 1645 Number of HSP's gapped: 180084 Number of HSP's successfully gapped: 1648 Length of query: 368 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 231 Effective length of database: 1,770,017,148 Effective search space: 408873961188 Effective search space used: 408873961188 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 (21.7 bits) S2: 132 (55.5 bits)