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= 0003.0003.p (309 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KGN5.1 B3KGN5_9BACI Alanine racemase EC=5.1.1.1 306 1e-81 B1YIC4.1 B1YIC4_EXIS2 Transcriptional regulator, LacI family 233 2e-59 Q9KBJ8.1 Q9KBJ8_BACHD Transcriptional regulator (LacI family) 231 7e-59 C4L1S0.1 C4L1S0_EXISA Transcriptional regulator, LacI family 230 1e-58 C1I3V9.1 C1I3V9_9CLOT Transcriptional regulator 204 9e-51 >B3KGN5.1 B3KGN5_9BACI Alanine racemase EC=5.1.1.1 Length = 370 Score = 306 bits (785), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 152/244 (62%), Positives = 185/244 (75%) Query: 1 LTTIYDIAKKTGYSPTTVSKAFNNYSDVREKTRQEILRTAQEMGYLPNAHARTLTTKKSW 60 LTTIYDIAKKTGYSPTTVSK FNNY DVREKTR +IL TA+EMGYLPNA+AR+LTTK+SW Sbjct: 35 LTTIYDIAKKTGYSPTTVSKVFNNYPDVREKTRVKILETAKEMGYLPNANARSLTTKRSW 94 Query: 61 TIGVLFVEGTGAGIRHPFFSAVIESFKQVAVAKGYALMFISKDVGGKQSGYLENCRIRGV 120 TIG+LFVE TGAGIRHP+F AVIESFK+++V+KGY LMFISKDVGG++S Y+E+C+IRGV Sbjct: 95 TIGILFVEATGAGIRHPYFGAVIESFKKISVSKGYDLMFISKDVGGRRSSYVEHCKIRGV 154 Query: 121 DGVVVFLSDYNDPYFLELLESDIPTVILDYNTPQSHTVCSDNRAGALLAVNYLASLXXXX 180 DGVVV LS +DP F ELL+S IP VILD + H+V SDN G++LA+ YL SL Sbjct: 155 DGVVVILSSNDDPDFQELLDSGIPCVILDSSPEHVHSVYSDNIGGSMLAIRYLHSLGHRS 214 Query: 181 XXXXXXXXXXFPGSERELGYIAAMEELGLDVPDGYIAEGAFFSRESGYDAMLKLLELPEC 240 F G +R+ GY A+ EL L++ + YI F+S ESGY+AM +LL L + Sbjct: 215 IAHISGGLNTFAGEQRQHGYETALRELDLNLREEYITGSDFYSTESGYEAMKRLLALADR 274 Query: 241 RNAV 244 AV Sbjct: 275 PTAV 278 >B1YIC4.1 B1YIC4_EXIS2 Transcriptional regulator, LacI family Length = 337 Score = 233 bits (594), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 117/244 (47%), Positives = 157/244 (64%) Query: 1 LTTIYDIAKKTGYSPTTVSKAFNNYSDVREKTRQEILRTAQEMGYLPNAHARTLTTKKSW 60 + TIYD+AK TG+S TTVSKA NNYSDV EKT+ +I++ A +MGYLPNAHA++L+TK+SW Sbjct: 1 MGTIYDLAKITGFSITTVSKALNNYSDVSEKTKAKIVQAAADMGYLPNAHAQSLSTKRSW 60 Query: 61 TIGVLFVEGTGAGIRHPFFSAVIESFKQVAVAKGYALMFISKDVGGKQSGYLENCRIRGV 120 TIGV+F E G+ HPFF+A+IESF++ +GY L+F S+++ + YLE+ + R V Sbjct: 61 TIGVMFSEANEVGMMHPFFNAIIESFRKATEQQGYDLIFASRNLRNRDMSYLEHFQHRAV 120 Query: 121 DGVVVFLSDYNDPYFLELLESDIPTVILDYNTPQSHTVCSDNRAGALLAVNYLASLXXXX 180 DG+VV SD D + EL++S IP V++D ++ V SDN +G LAVN+L L Sbjct: 121 DGIVVICSDQMDKHVQELIQSSIPIVVVDMDSTDCSVVFSDNLSGGTLAVNHLYELGHRL 180 Query: 181 XXXXXXXXXXFPGSERELGYIAAMEELGLDVPDGYIAEGAFFSRESGYDAMLKLLELPEC 240 G R GY AM+ L L +PDGY+ G FFS E G AM LL LP+ Sbjct: 181 IAHIAGDMTIDAGLARIEGYKQAMDRLALPIPDGYLINGGFFSVEEGKQAMQTLLALPKR 240 Query: 241 RNAV 244 AV Sbjct: 241 PTAV 244 >Q9KBJ8.1 Q9KBJ8_BACHD Transcriptional regulator (LacI family) Length = 335 Score = 231 bits (588), Expect = 7e-59, Method: Compositional matrix adjust. Identities = 116/235 (49%), Positives = 154/235 (65%) Query: 1 LTTIYDIAKKTGYSPTTVSKAFNNYSDVREKTRQEILRTAQEMGYLPNAHARTLTTKKSW 60 + TIYDIAKKTGYS TTVSK NNY+DV +K R++++ EMGY P++ AR LTTKKSW Sbjct: 1 MATIYDIAKKTGYSITTVSKVLNNYTDVSDKARKKVMDAVTEMGYFPSSSARMLTTKKSW 60 Query: 61 TIGVLFVEGTGAGIRHPFFSAVIESFKQVAVAKGYALMFISKDVGGKQSGYLENCRIRGV 120 TIGV+FVE G G+ HPFFS+VIE+FK+ GY L+F S +G + YLE+ R RGV Sbjct: 61 TIGVVFVESAGIGMEHPFFSSVIENFKKNVERFGYDLLFASNQIGNEAKTYLEHFRYRGV 120 Query: 121 DGVVVFLSDYNDPYFLELLESDIPTVILDYNTPQSHTVCSDNRAGALLAVNYLASLXXXX 180 DG+VV S NDP +L+++DIP+V++D ++ S V SDN G+ LAV+YL SL Sbjct: 121 DGIVVVCSLLNDPEVEKLMKADIPSVVIDLDSKGSSAVYSDNEYGSELAVDYLVSLGHRS 180 Query: 181 XXXXXXXXXXFPGSERELGYIAAMEELGLDVPDGYIAEGAFFSRESGYDAMLKLL 235 F G +R G+ A+++L L + D YI +G FF+ E G AM LL Sbjct: 181 IAHISGDQGLFVGVQRLKGFKDAIQKLNLSISDEYIVDGGFFTYEGGQRAMEALL 235 >C4L1S0.1 C4L1S0_EXISA Transcriptional regulator, LacI family Length = 337 Score = 230 bits (586), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 118/244 (48%), Positives = 153/244 (62%) Query: 1 LTTIYDIAKKTGYSPTTVSKAFNNYSDVREKTRQEILRTAQEMGYLPNAHARTLTTKKSW 60 + TIYD+AKKTG+S TTVSKA NNY DV +KTR +IL+ A EM YLPNAHA++L+TKKSW Sbjct: 1 MGTIYDLAKKTGFSITTVSKALNNYKDVSDKTRAKILQAAAEMDYLPNAHAQSLSTKKSW 60 Query: 61 TIGVLFVEGTGAGIRHPFFSAVIESFKQVAVAKGYALMFISKDVGGKQSGYLENCRIRGV 120 IGV+F E G++HPFF+ +IESF+ +GY L+F S+++ + YLE+ + R V Sbjct: 61 AIGVMFSEANEVGMKHPFFNGIIESFRHATEEQGYDLIFASRNLRNRDMSYLEHFKHRAV 120 Query: 121 DGVVVFLSDYNDPYFLELLESDIPTVILDYNTPQSHTVCSDNRAGALLAVNYLASLXXXX 180 DG+VV SD D EL+ SDIP V++D ++ V SDN GA LAVNYL L Sbjct: 121 DGIVVICSDRMDEQVQELMRSDIPIVVVDMDSANCSVVYSDNIEGARLAVNYLYELGHRK 180 Query: 181 XXXXXXXXXXFPGSERELGYIAAMEELGLDVPDGYIAEGAFFSRESGYDAMLKLLELPEC 240 G+ R GY AM+EL L + GY+ FFS E G AM +LLEL + Sbjct: 181 IAHIAGDETIDAGAARIKGYELAMQELDLPIRPGYLVNAGFFSVEEGKQAMERLLELDDQ 240 Query: 241 RNAV 244 AV Sbjct: 241 PTAV 244 >C1I3V9.1 C1I3V9_9CLOT Transcriptional regulator Length = 339 Score = 204 bits (519), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 109/258 (42%), Positives = 155/258 (60%), Gaps = 3/258 (1%) Query: 1 LTTIYDIAKKTGYSPTTVSKAFNNYSDVREKTRQEILRTAQEMGYLPNAHARTLTTKKSW 60 + TIY+IAK G SPTTVSK NNY DV +KTR++I +E +LPN+ A+ LTTKK+W Sbjct: 1 MITIYEIAKLAGVSPTTVSKVINNYPDVSDKTRKKIKDILEEQNFLPNSQAQGLTTKKTW 60 Query: 61 TIGVLFVEGTGAGIRHPFFSAVIESFKQVAVAKGYALMFISKDVGGKQSGYLENCRIRGV 120 T+G+++ E G G+ H FFS VIE+FK+ + GY+L+F SK+ K +LE R + V Sbjct: 61 TLGIVYFEDLGVGLSHSFFSNVIEAFKKQSDKYGYSLLFGSKNDRLKNDTFLEYFRYKCV 120 Query: 121 DGVVVFLSDYNDPYFLELLESDIPTVILDYNTPQSHTVCSDNRAGALLAVNYLASLXXXX 180 DG+ + +D ND + L+ SD P VI+D + TV SDN G A+ YL L Sbjct: 121 DGIAIICTDPNDKETISLVNSDFPIVIIDMINEHTSTVTSDNVTGCKAAIKYLYDLGHRK 180 Query: 181 XXXX--XXXXXXFPGSERELGYIAAMEELGLDVPDGYIAEGAFFSRESGYDAMLKLLELP 238 +P + R+ YI +M+E L++PDGY+A+G F GYDAM KLL+L Sbjct: 181 IAHIYGTSKIDNWPSTVRKKAYIESMKEFNLEIPDGYLADGVNFDFSGGYDAMKKLLKLD 240 Query: 239 ECRNAVVDRAAGRFALPA 256 + AV+ ++ + AL A Sbjct: 241 DRPTAVL-SSSDKIALGA 257 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 0.319 0.135 0.410 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: 1,849,445,075 Number of extensions: 73073702 Number of successful extensions: 178747 Number of sequences better than 1.0e-05: 5682 Number of HSP's gapped: 175207 Number of HSP's successfully gapped: 5682 Length of query: 309 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 174 Effective length of database: 1,788,859,178 Effective search space: 311261496972 Effective search space used: 311261496972 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)