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= 0307.0050.p (514 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q2B8N9.1 Q2B8N9_9BACI Type II secretion system protein E 178 2e-42 C3FWG9.1 C3FWG9_BACTB Pilus assembly protein CpaF 169 6e-40 C3EUY5.1 C3EUY5_BACTK Pilus assembly protein CpaF 169 6e-40 B5Z5Y3.1 B5Z5Y3_BACCE Type II/IV secretion system protein 169 6e-40 B8I0A4.1 B8I0A4_CLOCE Putative uncharacterized protein 132 1e-28 >Q2B8N9.1 Q2B8N9_9BACI Type II secretion system protein E Length = 502 Score = 178 bits (451), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 125/420 (29%), Positives = 209/420 (49%), Gaps = 18/420 (4%) Query: 83 YFELNAKALIGDPQAVSFFMNEIEKYLRKTPFTGK-VPEAYGTAAEALFHEWKGFGPAYR 141 + E +A+IGD A+ +F+ EIEK LR T K P + + +EA+FHE G + Sbjct: 83 WLERQHQAIIGDKVAIEYFLAEIEKVLRTKNITSKDFPSFFNSLSEAIFHEIWGLSVLAK 142 Query: 142 WFTDRAYSESTGLQMIGRQIFYNHRGKFVVYPYEMPSLDRVEQLKRSLLKSDPDKKLNKD 201 W Y ES + G Q++ + G+FV E SL VE++KR+ + PD +N++ Sbjct: 143 W---ERYPESEACCIRGTQLWIDIDGQFVKQEEEFESLTVVERIKRAFVIRRPDSVINRE 199 Query: 202 NPSVEFKMDDPLWPGRFIRLAIWVSPRVWEGFTTISLRRQVVEFLDLEDKAGTGCIPAEA 261 +P +E + +D R+ + PR E + I +RR +V L D+A G IP E Sbjct: 200 SPELEIEREDGS------RITMIQPPRSRENY--IMIRRFIVNKYSLHDQASRGTIPQED 251 Query: 262 IELIRALSGTFRNTIIAGAVGSGKTTFANTVVGEQLLGSSSCMGVVMIEKHPESILPYQI 321 I + +AL+ T N I+AG V S K+TF T++GE+ S +G V+ EKH E L Sbjct: 252 IPIFQALARTMANMIVAGRVRSAKSTFMTTLIGER---DDSFVGAVL-EKHFEVALSKHF 307 Query: 322 KGHRIIPIQAANEELMEVGVESLRHDPNILYMTEMRYNEWEFYLWSGEKGYDGITGTFHT 381 IQA +L + LR + + + + E+R E E YL S E+G G TFH Sbjct: 308 PNRLFFEIQAKEGDLHKAIPRLLRMEHDFVVVGEIRSLEIEAYLQSTERGERGSLSTFHL 367 Query: 382 VDSEDIPYQGA-FAVSTRIGGSLKGHLISALKSCELVFILESVAD-GKKRLARISEVYYD 439 D E + Q A + + + ++ +++ +++ D KKR+ ++EV +D Sbjct: 368 TDVEQVVEQLARLTLDEFPTRRFEVEVERIARNIDIIITMDTERDRSKKRVVGVTEVIWD 427 Query: 440 EAANSVFANDLMRWEEEQSAWSYNDKLTAGLMRKMKKKNPRASRVLLQELGHLAAQKPMD 499 + DL+R+ + + + Y+ +++ L+ M K++ ++ LL+ L PM+ Sbjct: 428 NQQRRHYTQDLIRYSKLKDKYYYSSNISSRLLNLMAKEDLEETKNLLRLLKQREQVSPME 487 >C3FWG9.1 C3FWG9_BACTB Pilus assembly protein CpaF Length = 481 Score = 169 bits (428), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 121/425 (28%), Positives = 201/425 (47%), Gaps = 18/425 (4%) Query: 85 ELNAKALIGDPQAVSFFMNEIEKYLRKTPFTG-KVPEAYGTAAEALFHEWKGFGPAYRWF 143 E+ A++GD +A EIEK LR+ K P+ + + A+ALFHE GFG Y+W Sbjct: 70 EIEHNAILGDHEAEKILTKEIEKCLREQNLLDVKYPDFFDSLAQALFHEIYGFGAFYKW- 128 Query: 144 TDRAYSESTGLQMIGRQIFYNHRGKFVVYPYEMPSLDRVEQLKRSLLKSDPDKKLNKDNP 203 + Y ES +IG++I++ GKFV E+ + + ++ R+L K+N +NP Sbjct: 129 --KKYPESVSASIIGKEIWFKINGKFVKQEEELRDEEHIYEIFRALEVGHKGLKINHENP 186 Query: 204 SVEFKMDDPLWPGRFIRLAIWVSPRVWEGFTTISLRRQVVEFLDLEDKAGTGCIPAEAIE 263 E +M D R+ I P F I RR +++ E++A I +E +E Sbjct: 187 RAEIEMKDGT------RVNIIRPPANL--FPVIVFRRFIIKNFSFEEQARRKTISSEDVE 238 Query: 264 LIRALSGTFRNTIIAGAVGSGKTTFANTVVGEQLLGSSSCMGVVMIEKHPESILPYQIKG 323 L+ +S + N IIAG V SGK+T T+ + S + IE PES L Sbjct: 239 LMEIISQLYLNMIIAGHVESGKSTMLKTIFASR----SPEKIAICIETSPESFLKKDFPD 294 Query: 324 HRIIPIQAANEELMEVGVESLRHDPNILYMTEMRYNEWEFYLWSGEKGYDGITGTFHTVD 383 + + N + +V +LR D + + E+R E + + E+G G+ T+H D Sbjct: 295 RLVYDMYTINGNIEDVIYSALRTDHDYIIFQEVRGIEADGAMKGAERGTTGMMMTYHITD 354 Query: 384 SEDIPYQGA-FAVSTRIGGSLKGHLISALKSCELVFILES-VADGKKRLARISEVYYDEA 441 P Q A V L+ + K+ +L I+++ +KRL I E+ YD Sbjct: 355 PSRTPEQLAQHIVDAYANRKLENEIRRVAKNLDLGIIMKNDEPKNEKRLMSIYEICYDYK 414 Query: 442 ANSVFANDLMRWEEEQSAWSYNDKLTAGLMRKMKKKNPRASRVLLQELGHLAAQKPMDEP 501 + + N LM++ E W YN +++ L++KMK + + + +Q L + + P+ Sbjct: 415 GDKAWINYLMKYNELDERWEYNSEVSEALIKKMKSVDRKKAERFIQLLQERSERSPITTT 474 Query: 502 LKESL 506 +KE + Sbjct: 475 IKEEI 479 >C3EUY5.1 C3EUY5_BACTK Pilus assembly protein CpaF Length = 481 Score = 169 bits (428), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 121/425 (28%), Positives = 201/425 (47%), Gaps = 18/425 (4%) Query: 85 ELNAKALIGDPQAVSFFMNEIEKYLRKTPFTG-KVPEAYGTAAEALFHEWKGFGPAYRWF 143 E+ A++GD +A EIEK LR+ K P+ + + A+ALFHE GFG Y+W Sbjct: 70 EIEHNAILGDHEAEKILTKEIEKCLREQNLLDVKYPDFFDSLAQALFHEIYGFGAFYKW- 128 Query: 144 TDRAYSESTGLQMIGRQIFYNHRGKFVVYPYEMPSLDRVEQLKRSLLKSDPDKKLNKDNP 203 + Y ES +IG++I++ GKFV E+ + + ++ R+L K+N +NP Sbjct: 129 --KKYPESVSASIIGKEIWFKINGKFVKQEEELRDEEHIYEIFRALEVGHKGLKINHENP 186 Query: 204 SVEFKMDDPLWPGRFIRLAIWVSPRVWEGFTTISLRRQVVEFLDLEDKAGTGCIPAEAIE 263 E +M D R+ I P F I RR +++ E++A I +E +E Sbjct: 187 RAEIEMKDGT------RVNIIRPPANL--FPVIVFRRFIIKNFSFEEQARRKTISSEDVE 238 Query: 264 LIRALSGTFRNTIIAGAVGSGKTTFANTVVGEQLLGSSSCMGVVMIEKHPESILPYQIKG 323 L+ +S + N IIAG V SGK+T T+ + S + IE PES L Sbjct: 239 LMEIISQLYLNMIIAGHVESGKSTMLKTIFASR----SPEKIAICIETSPESFLKKDFPD 294 Query: 324 HRIIPIQAANEELMEVGVESLRHDPNILYMTEMRYNEWEFYLWSGEKGYDGITGTFHTVD 383 + + N + +V +LR D + + E+R E + + E+G G+ T+H D Sbjct: 295 RLVYDMYTINGNIEDVIYSALRTDHDYIIFQEVRGIEADGAMKGAERGTTGMMMTYHITD 354 Query: 384 SEDIPYQGA-FAVSTRIGGSLKGHLISALKSCELVFILES-VADGKKRLARISEVYYDEA 441 P Q A V L+ + K+ +L I+++ +KRL I E+ YD Sbjct: 355 PSRTPEQLAQHIVDAYANRKLENEIRRVAKNLDLGIIMKNDEPKNEKRLMSIYEICYDYK 414 Query: 442 ANSVFANDLMRWEEEQSAWSYNDKLTAGLMRKMKKKNPRASRVLLQELGHLAAQKPMDEP 501 + + N LM++ E W YN +++ L++KMK + + + +Q L + + P+ Sbjct: 415 GDKAWINYLMKYNELDERWEYNSEVSEALIKKMKSVDRKKAERFIQLLQERSERSPITTT 474 Query: 502 LKESL 506 +KE + Sbjct: 475 IKEEI 479 >B5Z5Y3.1 B5Z5Y3_BACCE Type II/IV secretion system protein Length = 481 Score = 169 bits (428), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 121/425 (28%), Positives = 201/425 (47%), Gaps = 18/425 (4%) Query: 85 ELNAKALIGDPQAVSFFMNEIEKYLRKTPFTG-KVPEAYGTAAEALFHEWKGFGPAYRWF 143 E+ A++GD +A EIEK LR+ K P+ + + A+ALFHE GFG Y+W Sbjct: 70 EIEHNAILGDHEAEKILTKEIEKCLREQNLLDVKYPDFFDSLAQALFHEIYGFGAFYKW- 128 Query: 144 TDRAYSESTGLQMIGRQIFYNHRGKFVVYPYEMPSLDRVEQLKRSLLKSDPDKKLNKDNP 203 + Y ES +IG++I++ GKFV E+ + + ++ R+L K+N +NP Sbjct: 129 --KKYPESVSASIIGKEIWFKINGKFVKQEEELRDEEHIYEIFRALEVGHKGLKINHENP 186 Query: 204 SVEFKMDDPLWPGRFIRLAIWVSPRVWEGFTTISLRRQVVEFLDLEDKAGTGCIPAEAIE 263 E +M D R+ I P F I RR +++ E++A I +E +E Sbjct: 187 RAEIEMKDGT------RVNIIRPPANL--FPVIVFRRFIIKNFSFEEQARRKTISSEDVE 238 Query: 264 LIRALSGTFRNTIIAGAVGSGKTTFANTVVGEQLLGSSSCMGVVMIEKHPESILPYQIKG 323 L+ +S + N IIAG V SGK+T T+ + S + IE PES L Sbjct: 239 LMEIISQLYLNMIIAGHVESGKSTMLKTIFASR----SPEKIAICIETSPESFLKKDFPD 294 Query: 324 HRIIPIQAANEELMEVGVESLRHDPNILYMTEMRYNEWEFYLWSGEKGYDGITGTFHTVD 383 + + N + +V +LR D + + E+R E + + E+G G+ T+H D Sbjct: 295 RLVYDMYTINGNIEDVIYSALRTDHDYIIFQEVRGIEADGAMKGAERGTTGMMMTYHITD 354 Query: 384 SEDIPYQGA-FAVSTRIGGSLKGHLISALKSCELVFILES-VADGKKRLARISEVYYDEA 441 P Q A V L+ + K+ +L I+++ +KRL I E+ YD Sbjct: 355 PSRTPEQLAQHIVDAYANRKLENEIRRVAKNLDLGIIMKNDEPKNEKRLMSIYEICYDYK 414 Query: 442 ANSVFANDLMRWEEEQSAWSYNDKLTAGLMRKMKKKNPRASRVLLQELGHLAAQKPMDEP 501 + + N LM++ E W YN +++ L++KMK + + + +Q L + + P+ Sbjct: 415 GDKAWINYLMKYNELDERWEYNSEVSEALIKKMKSVDRKKAERFIQLLQERSERSPITTT 474 Query: 502 LKESL 506 +KE + Sbjct: 475 IKEEI 479 >B8I0A4.1 B8I0A4_CLOCE Putative uncharacterized protein Length = 495 Score = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 108/432 (25%), Positives = 201/432 (46%), Gaps = 22/432 (5%) Query: 84 FELNAKALIGDPQAVSFFMNEIEKYLRKTPFTG-KVPEAYGTAAEALFHEWKGFGPAYRW 142 E + A++G P V++ ++I +YL+ + P Y +A+FHE G W Sbjct: 72 LERHRNAILGKPTEVNYLKDKIREYLKAKRLENERYPTWYKNLIDAIFHENWGIAGIAEW 131 Query: 143 FTDRAYSESTGLQMIGRQIFYNHRGKFVVYPYEMPSLDRVEQLKRSLLKSDPDKKLNKDN 202 ES+ ++IG +I++ GK V+ + S R EQL+++ + SD K+ N++ Sbjct: 132 MD---MPESSSAKIIGDRIYFFINGKQVLKEQRI-SKKRFEQLRQAFMLSDETKRANENY 187 Query: 203 PSVEFKMDDPLWPGRFIRLAIWVSPRVWEGFTTISLRRQVVEFLDLEDKAGTGCIPAEAI 262 + ++ G R+ ++ +V +G + + R+ VV+ L E++A G IP E + Sbjct: 188 SELY------MYSGE--RVTVYTGRKVIDGQSVMVFRKYVVKVLTFEEQARRGTIPVELV 239 Query: 263 ELIRALSGTFRNTIIAGAVGSGKTTFANTVVGEQLLGSSSCMGVVMIEKHPESILPYQIK 322 + AL G V SGK+T ++ QL G V+I+ PE + + Sbjct: 240 PALEALVNCGVKVAFIGPVRSGKSTM---LLTWQLYEDPELEG-VLIQTDPEIRIHEVMP 295 Query: 323 GHRIIPIQAANEELMEVGVESLRHDPNILYMTEMR--YNEWEFYLWSGEKGYDGITGTFH 380 I+P+ A +EL E+ E L+ D + L + E+R Y + + + KG + + T H Sbjct: 296 KAPIMPLIAGGKELFELSSEILKSDADYLVVQEVRDGYTAY-IAVEAANKGTNRLKITAH 354 Query: 381 TVDSEDIPYQGAFAVSTRIGGSLKGHLISALKSCELVFILESVADGK--KRLARISEVYY 438 + ED Y A + GG++ ++ S +F + + + KRL I E+ Y Sbjct: 355 LSNPEDFCYDIANKIQGVFGGNIDYQMVRVANSFNFLFEMVQLPGNRSQKRLKSIYEIRY 414 Query: 439 DEAANSVFANDLMRWEEEQSAWSYNDKLTAGLMRKMKKKNPRASRVLLQELGHLAAQKPM 498 D AN + + + + ++ +W ++ + + + +NP+A V L L+ + PM Sbjct: 415 DTEANVISYHKICEYNKDTDSWCFSYSVGNKVTELGEFENPKALEVYKNTLKFLSEKYPM 474 Query: 499 DEPLKESLKSKI 510 E + + SK+ Sbjct: 475 PEKVVKPTYSKV 486 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 0.403 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: 3,168,688,916 Number of extensions: 134918300 Number of successful extensions: 386361 Number of sequences better than 1.0e-05: 78 Number of HSP's gapped: 386482 Number of HSP's successfully gapped: 78 Length of query: 514 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 374 Effective length of database: 1,741,754,103 Effective search space: 651416034522 Effective search space used: 651416034522 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: 134 (56.2 bits)