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= 0587.0003.p (335 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D518.1 B1D518_9BACL Transcriptional regulator, LacI family 322 2e-86 C2W9C6.1 C2W9C6_BACCE Transcriptional regulator (AraC/XylS family) 256 3e-66 C3J7G7.1 C3J7G7_9BACI Transcriptional regulator, LacI family 252 4e-65 B7Y7J3.1 B7Y7J3_9BACI Transcriptional regulator, LacI family 252 4e-65 Q5KY04.1 Q5KY04_GEOKA Transcriptional regulator 250 1e-64 >B1D518.1 B1D518_9BACL Transcriptional regulator, LacI family Length = 340 Score = 322 bits (826), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 171/342 (50%), Positives = 227/342 (66%), Gaps = 15/342 (4%) Query: 4 LPTIKDIAREAGVSAATVSRVLNNDLSLAVSEVTRTRVFAVAEQLGYKPARLKQLKRDTE 63 + TIK IA EAGVS ATVSRVLNNDLSL+VSE TR+R+F++AEQL YKPARLK++K+D Sbjct: 1 MATIKQIASEAGVSPATVSRVLNNDLSLSVSEETRSRIFSIAEQLQYKPARLKRMKQDQL 60 Query: 64 RSGKTVSLLLRCSVEEERDDPYYGSIRRGIELRAEELGIXXXXLGQTLRG--HGQLPALR 121 S V L++ ++E+E DPY+G+IRRGIE R EELGI + + +RG + L Sbjct: 61 LSTIKVGLVMWSTLEDEHSDPYFGAIRRGIETRCEELGIG---IDKVIRGVLKSEATPLS 117 Query: 122 ACDGLIVVGGFDPRELESLHADPSTIVLVDQYGEQTDYDSVRTHFRQAVEQALGHLMALG 181 DGLIVVG D +E+ L+ ++ V+ D DSV+ +F QA+++ L HL LG Sbjct: 118 ELDGLIVVGSVDDQEVYRLYPRKDRVIFVNHDQTPDDCDSVQLNFGQAMKEVLRHLYELG 177 Query: 182 HRDIAFIGG----------GGDGERRAHHFERIMLERGWFDDRLVRTGGWSSADGYRMMN 231 H +I FIGG G ++R F + ++G ++ L+ WSS GY M Sbjct: 178 HTEIGFIGGSSNPVVHREDGKHEDQRTTIFAELQQKKGNYNPELMYLADWSSNGGYEAML 237 Query: 232 ELLAGAKRPTACFAASDPLAVGALRALHGQGVRVPEEMAIVGFDDIEMAAYVQPPLTTVR 291 +L RPTACF ASDP+AVG LRALH +G+RVPE+MA++GFDDIE++A++ PPLTTVR Sbjct: 238 RMLDDGHRPTACFVASDPMAVGVLRALHERGLRVPEDMAVIGFDDIEVSAFLTPPLTTVR 297 Query: 292 AYPEQMGKAAVQLLVERFEGREAPSHTITGTKLIVRESCGGT 333 + E MG+ AVQLL+ER EGR+ SH TKLIVRES G + Sbjct: 298 VHTELMGRTAVQLLLERVEGRDITSHITINTKLIVRESSGTS 339 >C2W9C6.1 C2W9C6_BACCE Transcriptional regulator (AraC/XylS family) Length = 339 Score = 256 bits (653), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 136/340 (40%), Positives = 200/340 (58%), Gaps = 16/340 (4%) Query: 6 TIKDIAREAGVSAATVSRVLNNDLSLAVSEVTRTRVFAVAEQLGYKPARLKQLKRDTERS 65 T+ +IA++A +S TVSRVLN D +L+V+E TR ++ AE+L Y P + + +++ + Sbjct: 3 TLNEIAKKAQISKTTVSRVLNEDQTLSVTEETRKKILQAAEELDYIPKKQRNIEKKITKP 62 Query: 66 GK--TVSLLLRCSVEEERDDPYYGSIRRGIELRAEELGIXXXXLGQTLRGHGQLPALRAC 123 + + LL+ S E E DDPY+ +IR GIE R ELGI L + LR L Sbjct: 63 KQYGKIGLLMYLSQESEFDDPYFLAIRNGIEKRMIELGIE---LSKVLRPPFNKKDLEGL 119 Query: 124 DGLIVVGGFDPRELESLHADPSTIVLVDQYGEQTDYDSVRTHFRQAVEQALGHLMALGHR 183 DGLIVVG E+E+ +V VD ++ YDSV +A E+ + +L+ LGH+ Sbjct: 120 DGLIVVGVIGQEEVENQVKQVQHLVFVDVSPDEQLYDSVVIDCEKATEKVIQYLLDLGHK 179 Query: 184 DIAFIGG------GGDGERRAHH-----FERIMLERGWFDDRLVRTGGWSSADGYRMMNE 232 I +IGG G G+ H +E+++ E+G ++ G W + DG +M E Sbjct: 180 KIGYIGGQSYTIGGLSGKLEIHDVRKKTYEKMLTEQGLYNPEYTYIGKWKTKDGLTLMEE 239 Query: 233 LLAGAKRPTACFAASDPLAVGALRALHGQGVRVPEEMAIVGFDDIEMAAYVQPPLTTVRA 292 + PTA F SDP+A+GAL+AL G++VP+++AI GFD IE+ +V PPL+TV+ Sbjct: 240 AIQSGNLPTAFFIGSDPMAIGALKALTDSGLKVPDDIAIFGFDGIELCEFVTPPLSTVKV 299 Query: 293 YPEQMGKAAVQLLVERFEGREAPSHTITGTKLIVRESCGG 332 + E+MGK AV LLVERF+GR P + T LI+R+SCGG Sbjct: 300 HTEEMGKVAVNLLVERFDGRTLPLKVVVPTSLIIRKSCGG 339 >C3J7G7.1 C3J7G7_9BACI Transcriptional regulator, LacI family Length = 340 Score = 252 bits (643), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 150/342 (43%), Positives = 207/342 (60%), Gaps = 20/342 (5%) Query: 4 LPTIKDIAREAGVSAATVSRVLNNDLSLAVSEVTRTRVFAVAEQLGYKPARLK-QLKRDT 62 + T+K+IA + GVS ATVSRVLN D++L+VS+ TR R+F VA++L YK R + Q R++ Sbjct: 1 MATLKEIAEKVGVSVATVSRVLNYDVTLSVSDETRRRIFEVAQELNYKTLRERSQQARES 60 Query: 63 ERSGKTVSLLLRCSVEEERDDPYYGSIRRGIELRAEELGIXXXXLGQTLRGHGQLPALR- 121 R G L+ S +E DDPYY +IR G+E + GI L + + HG P R Sbjct: 61 FRFG----LIHWYSERQEIDDPYYMAIRLGVEKECFDRGIE---LVKLFKQHGAYPIERM 113 Query: 122 -ACDGLIVVGGFDPRELESLHADPSTIVLVDQYGEQTDYDSVRTHFRQAVEQALGHLMAL 180 A DG+I VG F P+E+E A IV VD ++ +DSV RQA L +L+ L Sbjct: 114 EALDGIIAVGKFGPKEVEVFAAGAKQIVFVDCSPDEHRFDSVVIDLRQATVTVLDYLLRL 173 Query: 181 GHRDIAFIGGGG--DGE------RRAHHFERIMLERGWFDDRLVRTGGWSSADGYRMMNE 232 GH I +IGG DGE R A +E + + +G +D R V G +++ DGYR+M E Sbjct: 174 GHTKIGYIGGREYVDGETPIRDEREAAFYEYLYV-KGLYDSRYVWIGAFTAEDGYRLMKE 232 Query: 233 LLAGAKRPTACFAASDPLAVGALRALHGQGVRVPEEMAIVGFDDIEMAAYVQPPLTTVRA 292 ++G PTA F ASD +A+GALRALH G+ VPEE AIVGF+DI AA++ PPL+TV+ Sbjct: 233 AVSGGDLPTAFFIASDSMAIGALRALHEAGIAVPEEAAIVGFNDIPTAAFLHPPLSTVKV 292 Query: 293 YPEQMGKAAVQLLVERFEGREA-PSHTITGTKLIVRESCGGT 333 Y E MG+ AV+LL+ER + A + T+L++R S G Sbjct: 293 YTEFMGETAVELLIERLTTKRAICKKVVVPTELVIRSSSEGN 334 >B7Y7J3.1 B7Y7J3_9BACI Transcriptional regulator, LacI family Length = 340 Score = 252 bits (643), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 150/342 (43%), Positives = 207/342 (60%), Gaps = 20/342 (5%) Query: 4 LPTIKDIAREAGVSAATVSRVLNNDLSLAVSEVTRTRVFAVAEQLGYKPARLK-QLKRDT 62 + T+K+IA + GVS ATVSRVLN D++L+VS+ TR R+F VA++L YK R + Q R++ Sbjct: 1 MATLKEIAEKVGVSVATVSRVLNYDVTLSVSDETRRRIFEVAQELNYKTLRERSQQARES 60 Query: 63 ERSGKTVSLLLRCSVEEERDDPYYGSIRRGIELRAEELGIXXXXLGQTLRGHGQLPALR- 121 R G L+ S +E DDPYY +IR G+E + GI L + + HG P R Sbjct: 61 FRFG----LIHWYSERQEIDDPYYMAIRLGVEKECFDRGIE---LVKLFKQHGAYPIERM 113 Query: 122 -ACDGLIVVGGFDPRELESLHADPSTIVLVDQYGEQTDYDSVRTHFRQAVEQALGHLMAL 180 A DG+I VG F P+E+E A IV VD ++ +DSV RQA L +L+ L Sbjct: 114 EALDGIIAVGKFGPKEVEVFAAGAKQIVFVDCSPDEHRFDSVVIDLRQATVTVLDYLLRL 173 Query: 181 GHRDIAFIGGGG--DGE------RRAHHFERIMLERGWFDDRLVRTGGWSSADGYRMMNE 232 GH I +IGG DGE R A +E + + +G +D R V G +++ DGYR+M E Sbjct: 174 GHTKIGYIGGREYVDGETPIRDEREAAFYEYLYV-KGLYDSRYVWIGAFTAEDGYRLMKE 232 Query: 233 LLAGAKRPTACFAASDPLAVGALRALHGQGVRVPEEMAIVGFDDIEMAAYVQPPLTTVRA 292 ++G PTA F ASD +A+GALRALH G+ VPEE AIVGF+DI AA++ PPL+TV+ Sbjct: 233 AVSGGDLPTAFFIASDSMAIGALRALHEAGIAVPEEAAIVGFNDIPTAAFLHPPLSTVKV 292 Query: 293 YPEQMGKAAVQLLVERFEGREA-PSHTITGTKLIVRESCGGT 333 Y E MG+ AV+LL+ER + A + T+L++R S G Sbjct: 293 YTEFMGETAVELLIERLTTKRAICKKVVVPTELVIRSSSEGN 334 >Q5KY04.1 Q5KY04_GEOKA Transcriptional regulator Length = 340 Score = 250 bits (639), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 150/342 (43%), Positives = 206/342 (60%), Gaps = 20/342 (5%) Query: 4 LPTIKDIAREAGVSAATVSRVLNNDLSLAVSEVTRTRVFAVAEQLGYKPARLK-QLKRDT 62 + T+K+IA + GVS ATVSRVLN D +L+VS+ TR R+F VA++L YK R + Q R++ Sbjct: 1 MATLKEIAEKVGVSVATVSRVLNYDATLSVSDETRRRIFEVAQELNYKTLRERSQQARES 60 Query: 63 ERSGKTVSLLLRCSVEEERDDPYYGSIRRGIELRAEELGIXXXXLGQTLRGHGQLPALR- 121 R G L+ S +E DDPYY +IR G+E + GI L + + HG P R Sbjct: 61 FRFG----LIHWYSERQEIDDPYYMAIRLGVEKECFDRGIE---LVKLFKQHGAYPIERM 113 Query: 122 -ACDGLIVVGGFDPRELESLHADPSTIVLVDQYGEQTDYDSVRTHFRQAVEQALGHLMAL 180 A DG+I VG F P+E+E A IV VD ++ +DSV RQA L +L+ L Sbjct: 114 EALDGIIAVGKFGPKEVEVFAAGAKQIVFVDCSPDEHRFDSVVIDLRQATVTVLDYLLRL 173 Query: 181 GHRDIAFIGGGG--DGE------RRAHHFERIMLERGWFDDRLVRTGGWSSADGYRMMNE 232 GH I +IGG DGE R A +E + + +G +D R V G +++ DGYR+M E Sbjct: 174 GHTKIGYIGGREYVDGETPIRDEREAAFYEYLYV-KGLYDSRYVWIGAFTAEDGYRLMKE 232 Query: 233 LLAGAKRPTACFAASDPLAVGALRALHGQGVRVPEEMAIVGFDDIEMAAYVQPPLTTVRA 292 ++G PTA F ASD +A+GALRALH G+ VPEE AIVGF+DI AA++ PPL+TV+ Sbjct: 233 AVSGGDLPTAFFIASDSMAIGALRALHEAGIAVPEEAAIVGFNDIPTAAFLHPPLSTVKV 292 Query: 293 YPEQMGKAAVQLLVERFEGREA-PSHTITGTKLIVRESCGGT 333 Y E MG+ AV+LL+ER + A + T+L++R S G Sbjct: 293 YTEFMGETAVELLIERLTTKRAICKKVVVPTELVIRSSSEGN 334 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 0.137 0.400 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: 1,972,745,588 Number of extensions: 81183391 Number of successful extensions: 233892 Number of sequences better than 1.0e-05: 7521 Number of HSP's gapped: 223405 Number of HSP's successfully gapped: 7550 Length of query: 335 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 199 Effective length of database: 1,779,438,163 Effective search space: 354108194437 Effective search space used: 354108194437 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)