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= 0346.0008.p (331 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B4AGB0.1 B4AGB0_BACPU LacI family transcriptional regulator 385 e-105 A8FHC3.1 A8FHC3_BACP2 LacI family transcriptional regulator 384 e-105 Q9JMQ1.1 EXUR_BACSU Probable HTH-type transcriptional repressor ... 365 2e-99 A7Z3M7.1 A7Z3M7_BACA2 ExuR 365 3e-99 Q65F23.1 Q65F23_BACLD Transcriptional regulator 356 2e-96 >B4AGB0.1 B4AGB0_BACPU LacI family transcriptional regulator Length = 336 Score = 385 bits (990), Expect = e-105, Method: Compositional matrix adjust. Identities = 179/333 (53%), Positives = 244/333 (73%), Gaps = 3/333 (0%) Query: 2 ITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFT 61 +TIKDIA++A VSHTTVSRALN SP IK+ T+ KI IA ++NY PN A+ LV+++SFT Sbjct: 3 VTIKDIAKLANVSHTTVSRALNNSPFIKEKTKQKILSIAKQLNYSPNVHARGLVSQKSFT 62 Query: 62 IGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVMS 121 IGLFF+S+ +GTS+SF VDA+KG++ ++ E++NL V GID H++ I QR+DGIL+MS Sbjct: 63 IGLFFTSLTEGTSSSFFVDALKGVNSVMTEHYNLFVRGIDDFHDYTTIHKQRYDGILLMS 122 Query: 122 QSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAII 181 QS+ D AFI+HVKK GIP++VLNR++E +MN++A+D +G +A Y ++QGH+++AII Sbjct: 123 QSEHDEAFIHHVKKQGIPIIVLNRRVESNEVMNILADDSQGAYQAAHYFIQQGHQQIAII 182 Query: 182 EGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAVF 241 EGK GFKS+ ERK GF+ +LI H +P+ Y GDY ++SGY +M +LL L+ PPTA+F Sbjct: 183 EGKEGFKSTQERKAGFLQALIDHHIPMKKEYMITGDYHMKSGYESMESLLTLDHPPTALF 242 Query: 242 CSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTKM 301 CSNDDMAIGAMNA YA PG IS++GFDDI FS YT PALTTV+KPI ++ LG + Sbjct: 243 CSNDDMAIGAMNALYAKGKTCPGDISIIGFDDIAFSSYTTPALTTVKKPIEKMCALGAEA 302 Query: 302 XXXX---XXXXXXXXXXXFVNTSLVIRQTVAEV 331 +V+T L+IR +V +V Sbjct: 303 ILSVINGEEQEKDHMEKMYVHTELMIRDSVKKV 335 >A8FHC3.1 A8FHC3_BACP2 LacI family transcriptional regulator Length = 336 Score = 384 bits (986), Expect = e-105, Method: Compositional matrix adjust. Identities = 178/333 (53%), Positives = 243/333 (72%), Gaps = 3/333 (0%) Query: 2 ITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFT 61 +TIKDIA++A VSHTTVSRALN SP IK+ T+ KI IA ++NY PN A+ LV+++SFT Sbjct: 3 VTIKDIAKLANVSHTTVSRALNNSPFIKEKTKQKILSIAKQLNYSPNVHARGLVSQKSFT 62 Query: 62 IGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVMS 121 IGLFF+S+ +GTS+SF VDA+KG++ ++ E++NL V GID H++ I QR+DGIL+MS Sbjct: 63 IGLFFTSLTEGTSSSFFVDALKGVNSVMTEHYNLFVRGIDDFHDYTTIHKQRYDGILLMS 122 Query: 122 QSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAII 181 QS+ D AFI+HVKK GIP++VLNR++E +MN++A+D +G +A Y ++QGH+++AII Sbjct: 123 QSEHDEAFIHHVKKQGIPIIVLNRRVESHEVMNILADDSQGAYQAAHYFIQQGHQQIAII 182 Query: 182 EGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAVF 241 EGK GFKS+ ERK GF+ +LI H +P+ Y GDY ++SGY +M +LL L+ PPTA+F Sbjct: 183 EGKEGFKSTQERKAGFLQALIDHHIPMKKEYMIKGDYHMKSGYESMESLLTLDHPPTALF 242 Query: 242 CSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTKM 301 CSNDDMAIGAMNA YA PG +S++GFDDI FS YT PALTTV+KPI ++ LG Sbjct: 243 CSNDDMAIGAMNALYAKGKTCPGDVSIIGFDDIAFSSYTTPALTTVKKPIEKMCALGADA 302 Query: 302 XXXX---XXXXXXXXXXXFVNTSLVIRQTVAEV 331 +V+T L+IR +V +V Sbjct: 303 ILSVINGEEQEEDHMEKMYVHTELMIRDSVKKV 335 >Q9JMQ1.1 EXUR_BACSU Probable HTH-type transcriptional repressor exuR Length = 333 Score = 365 bits (938), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 170/328 (51%), Positives = 235/328 (71%) Query: 1 MITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSF 60 M+TIKDIA++A VSHTTVSRALN SP IK+ T+ KI ++A ++NY PN +AKSL ++S Sbjct: 1 MVTIKDIAKLANVSHTTVSRALNNSPYIKEHTKKKILELAEQLNYTPNVNAKSLAMQKSH 60 Query: 61 TIGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVM 120 TIGLFF+SI GTS SF D IKG++ + E++NL V GID + N+ ++ P R+DGI++M Sbjct: 61 TIGLFFTSITNGTSHSFFADTIKGVNQAISEDYNLYVRGIDDLKNYDSVTPMRYDGIILM 120 Query: 121 SQSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAI 180 SQSD DN+FIYH+++ IPLVVLNR ++D I N+++ND+EG +EA++Y ++ GH+ +AI Sbjct: 121 SQSDIDNSFIYHIREKNIPLVVLNRDIDDRTITNILSNDKEGSQEAVEYFIQSGHQDIAI 180 Query: 181 IEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAV 240 IEG GFKSS +RK+G++ +LI H +P+ Y G Y +ESG+ AM LL L +PPTAV Sbjct: 181 IEGIEGFKSSQQRKEGYLSALIQHHIPIKHEYSVKGQYDMESGFQAMERLLALPNPPTAV 240 Query: 241 FCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTK 300 FCSNDDMAIGAMNA +A VP IS++GFDDI FS+Y P L+TV++P+ +IS LG + Sbjct: 241 FCSNDDMAIGAMNAIFAKGLRVPDDISVIGFDDIGFSQYITPRLSTVKRPVEKISVLGAQ 300 Query: 301 MXXXXXXXXXXXXXXXFVNTSLVIRQTV 328 NT ++R +V Sbjct: 301 KLLSLISEPETKAEKILENTEFMVRDSV 328 >A7Z3M7.1 A7Z3M7_BACA2 ExuR Length = 332 Score = 365 bits (937), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 171/331 (51%), Positives = 236/331 (71%) Query: 1 MITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSF 60 M+TIKDIA++A VSHTTVSRALNGSP IK+ T+ KI ++A+++NY PN +AKSL ++S Sbjct: 1 MVTIKDIAKLANVSHTTVSRALNGSPYIKEHTKQKILELASQLNYTPNVNAKSLAMQKSH 60 Query: 61 TIGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVM 120 TIGLFF+SI GTS SF D IKG++ + E +NL V ID + +F I P R+DGI++M Sbjct: 61 TIGLFFTSITNGTSHSFFSDTIKGVNRTISEEYNLFVRAIDDLKSFETITPMRYDGIILM 120 Query: 121 SQSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAI 180 SQSD DN+FIYH+++ IPLVVLNR ++D I N+++ND+EG ++A+D + GHR +AI Sbjct: 121 SQSDSDNSFIYHIREKNIPLVVLNRDIDDRSITNILSNDKEGSRQAVDCLIANGHRDIAI 180 Query: 181 IEGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAV 240 IEGK GF+S+S+RK+G++ SLI H +P+ Y G Y +ESG AM LL L+ PPTAV Sbjct: 181 IEGKEGFRSTSQRKEGYLTSLIDHSIPIKHEYSVKGRYDMESGSQAMEKLLALQSPPTAV 240 Query: 241 FCSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTK 300 FCSNDDMAIGAMNA +A +VP IS++GFDDI S+Y P L+TV++P+ IS LG + Sbjct: 241 FCSNDDMAIGAMNAIFAKGLNVPEDISVIGFDDIGISQYMTPRLSTVKRPVENISILGAE 300 Query: 301 MXXXXXXXXXXXXXXXFVNTSLVIRQTVAEV 331 + NT ++IR ++ ++ Sbjct: 301 KILALIADPDTAAEKIYENTEVMIRDSIKKL 331 >Q65F23.1 Q65F23_BACLD Transcriptional regulator Length = 332 Score = 356 bits (914), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 167/330 (50%), Positives = 236/330 (71%) Query: 2 ITIKDIARVAGVSHTTVSRALNGSPLIKKVTRDKIEKIAAEMNYVPNYSAKSLVTKRSFT 61 +TIKDIAR+A VSHTTVSRALN SPLIK+ T+ KI IAAEMNY PN++AKSLVT++SFT Sbjct: 3 VTIKDIARLANVSHTTVSRALNNSPLIKENTKKKILDIAAEMNYKPNFNAKSLVTQKSFT 62 Query: 62 IGLFFSSIEQGTSASFLVDAIKGISHILDENFNLTVNGIDGVHNFGNIQPQRFDGILVMS 121 IGLF +S+ GTS+SF D ++G++ ++DEN+N+ V GID H+ +I R+DG++++S Sbjct: 63 IGLFLTSLTDGTSSSFFADILRGVNKVIDENYNMVVRGIDDYHDLSSIHRNRYDGMILIS 122 Query: 122 QSDEDNAFIYHVKKMGIPLVVLNRQLEDPGIMNVVANDREGVKEAIDYAVRQGHRKLAII 181 QS++D AFI HV K IP+VVLNR++E ++N++AN+ EG A Y ++ GH+++A++ Sbjct: 123 QSEQDQAFIEHVLKQNIPVVVLNRKIEGHSVVNILANEHEGAFLAASYLIKNGHKQIAMV 182 Query: 182 EGKPGFKSSSERKQGFMDSLIAHRLPLNSGYFAAGDYSIESGYAAMAALLQLEDPPTAVF 241 +GK GFKSS ERK GF+ +L L + Y GDY+++SG+ A LL+L++PPTA+F Sbjct: 183 QGKEGFKSSQERKGGFLRALRDSNLDMPGEYLVQGDYTMQSGFRAAETLLKLKNPPTALF 242 Query: 242 CSNDDMAIGAMNACYAHKADVPGQISLLGFDDIMFSRYTNPALTTVRKPITEISELGTKM 301 C+NDDMAIGAMNA YA+ P +S++GFDD FS YT P+LTTV+KP +IS LG + Sbjct: 243 CANDDMAIGAMNALYANGKRCPDNMSIIGFDDSGFSAYTTPSLTTVKKPTEKISMLGAES 302 Query: 302 XXXXXXXXXXXXXXXFVNTSLVIRQTVAEV 331 ++T L+IR +V + Sbjct: 303 LLSLIENPQAEGGQTLISTELIIRNSVKHL 332 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 0.379 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: 1,745,109,874 Number of extensions: 69584464 Number of successful extensions: 197942 Number of sequences better than 1.0e-05: 8953 Number of HSP's gapped: 187192 Number of HSP's successfully gapped: 9000 Length of query: 331 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 195 Effective length of database: 1,779,438,163 Effective search space: 346990441785 Effective search space used: 346990441785 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)