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= 0377.0032.p (240 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKK7.1 B3KKK7_9BACI Regulatory protein GntR HTH 287 4e-76 C2YY75.1 C2YY75_BACCE Transcriptional regulator, GntR 249 1e-64 C2RUS8.1 C2RUS8_BACCE Transcriptional regulator, GntR 249 2e-64 C3G9T1.1 C3G9T1_BACTU Transcriptional regulator, GntR 248 4e-64 C3EA65.1 C3EA65_BACTU Transcriptional regulator, GntR 247 6e-64 >B3KKK7.1 B3KKK7_9BACI Regulatory protein GntR HTH Length = 238 Score = 287 bits (735), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 142/240 (59%), Positives = 184/240 (76%), Gaps = 2/240 (0%) Query: 1 VSLKRKQGPLYQQIQKILKDRILHGIYPLGSIIPSEPLLEKEFGVSKMTVRGAVQELAQE 60 +S+ RK GPLY QI+KI+KDRILHG+YPLGS IPSEP LE+EF VSKMTVR A+QEL QE Sbjct: 1 MSITRKNGPLYLQIKKIIKDRILHGVYPLGSHIPSEPQLEQEFNVSKMTVRNAIQELYQE 60 Query: 61 GYVQKRSGIGTIVTRNTSYQKLSKGKRFTELLVEEGHRLEKRLLSSKLIANAAGTEEFNR 120 GYV+KRSG+GTIVTRNTS+ KLSKGK FTE+LVEEGH++ KR L ++ + N +E F + Sbjct: 61 GYVEKRSGVGTIVTRNTSFSKLSKGKLFTEILVEEGHQIRKRHLKTEWVHNEPDSELFLK 120 Query: 121 YGPYCQRIERLYILNGQPYIHLMHFLTAAALPDGGAKEMSTDIQSLYDSLEENNIVLENF 180 +G C IERLY+L+G P+I+ H++ ++L D G + S+++ SLY+ +EE+ I LENF Sbjct: 121 FGERCLLIERLYLLDGSPFIYYTHYV--SSLVDMGEEFDSSELPSLYERIEESQITLENF 178 Query: 181 KDRFFVEPAAAEVCLLLELPPGTHVLKRLRNSYDGEGRLIEHSIGSYNTALHHYLVSYDA 240 +DRF A E+ LL + GT +LKRLR+SYD G +IE+SIG YNT L HYL+SYDA Sbjct: 179 RDRFLATVANEEIASLLGVSAGTPLLKRLRSSYDQTGSIIEYSIGYYNTELQHYLISYDA 238 >C2YY75.1 C2YY75_BACCE Transcriptional regulator, GntR Length = 241 Score = 249 bits (637), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 128/241 (53%), Positives = 172/241 (71%), Gaps = 5/241 (2%) Query: 1 VSLKRKQGPLYQQIQKILKDRILHGIYPLGSIIPSEPLLEKEFGVSKMTVRGAVQELAQE 60 V++ RK+GPLY QI+ I++DRILHG+Y + + IPSEP LE+EF VSK+TVR A++ELAQE Sbjct: 5 VNVTRKKGPLYLQIKNIIRDRILHGVYAIHTNIPSEPQLEEEFKVSKITVRNAIKELAQE 64 Query: 61 GYVQKRSGIGTIVTRNTSYQKLSKGKRFTELLVEEGHRLEKRLLSSKLIANAAGTEEFNR 120 GY++K+SG GT V RNTS KLSKGK+FTE+LVEEG++++K+LL ++++ N GT F Sbjct: 65 GYLEKKSGKGTKVIRNTSATKLSKGKKFTEVLVEEGYKVQKKLLKAEIVHNEEGTVPFRL 124 Query: 121 YGPYCQRIERLYILNGQPYIHLMHFLTAAALPDGGAKEMST-DIQSLYDSLEENNIVLEN 179 +G C RIERLY LN PYIH H+ +A + ++S D+QSLYD +E+ I LEN Sbjct: 125 FGKECFRIERLYALNDTPYIHYTHYFSAHM----ASTDLSDFDLQSLYDLVEDRGIHLEN 180 Query: 180 FKDRFFVEPAAAEVCLLLELPPGTHVLKRLRNSYDGEGRLIEHSIGSYNTALHHYLVSYD 239 F+D F V A V L GT +LKR+R SYD G +IE+S G YNT + HY+V+YD Sbjct: 181 FRDEFAVGAAPNFVAEALGEKEGTALLKRMRYSYDEVGEVIEYSEGYYNTEMQHYVVNYD 240 Query: 240 A 240 Sbjct: 241 V 241 >C2RUS8.1 C2RUS8_BACCE Transcriptional regulator, GntR Length = 241 Score = 249 bits (635), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 127/241 (52%), Positives = 173/241 (71%), Gaps = 5/241 (2%) Query: 1 VSLKRKQGPLYQQIQKILKDRILHGIYPLGSIIPSEPLLEKEFGVSKMTVRGAVQELAQE 60 V++ RK+GPLY QI+ I++DRILHG+Y + + IPSEP LE+EF VSK+TVR A++ELAQE Sbjct: 5 VNVTRKKGPLYLQIKNIIRDRILHGVYAIHTNIPSEPQLEEEFKVSKITVRNAIKELAQE 64 Query: 61 GYVQKRSGIGTIVTRNTSYQKLSKGKRFTELLVEEGHRLEKRLLSSKLIANAAGTEEFNR 120 GY++K+SG GT V RNTS KLSKGK+FTE+LVEEG++++K+LL ++++ N GT F Sbjct: 65 GYLEKKSGKGTKVIRNTSATKLSKGKKFTEVLVEEGYKVQKKLLKAEIVQNEEGTVPFRL 124 Query: 121 YGPYCQRIERLYILNGQPYIHLMHFLTAAALPDGGAKEMST-DIQSLYDSLEENNIVLEN 179 +G RIERLY LN PYIH H+ +A + ++S D+QSLYD +E+ I LEN Sbjct: 125 FGKESFRIERLYTLNDAPYIHYTHYFSAGM----ASSDLSDFDLQSLYDLVEDRGIHLEN 180 Query: 180 FKDRFFVEPAAAEVCLLLELPPGTHVLKRLRNSYDGEGRLIEHSIGSYNTALHHYLVSYD 239 F+D F V A + V L+ GT +LKR+R SYD G +IE+S G YNT + HY+V+YD Sbjct: 181 FRDEFAVGLAPSFVAEALDEKEGTALLKRMRYSYDEVGEVIEYSEGYYNTEMQHYVVNYD 240 Query: 240 A 240 Sbjct: 241 V 241 >C3G9T1.1 C3G9T1_BACTU Transcriptional regulator, GntR Length = 241 Score = 248 bits (632), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 127/241 (52%), Positives = 173/241 (71%), Gaps = 5/241 (2%) Query: 1 VSLKRKQGPLYQQIQKILKDRILHGIYPLGSIIPSEPLLEKEFGVSKMTVRGAVQELAQE 60 V++ RK+GPLY QI+ I++DRILHG+Y + + IPSEP LE+EF VSK+TVR A++ELAQE Sbjct: 5 VNVTRKKGPLYLQIKNIIRDRILHGVYAIHTNIPSEPQLEEEFKVSKITVRNAIKELAQE 64 Query: 61 GYVQKRSGIGTIVTRNTSYQKLSKGKRFTELLVEEGHRLEKRLLSSKLIANAAGTEEFNR 120 GY++K+SG GT V RNTS KLSKGK+FTE+LVEEG++++K+LL ++++ N GT F Sbjct: 65 GYLEKKSGKGTKVIRNTSATKLSKGKKFTEVLVEEGYKVQKKLLKAEIVQNEEGTVPFRL 124 Query: 121 YGPYCQRIERLYILNGQPYIHLMHFLTAAALPDGGAKEMST-DIQSLYDSLEENNIVLEN 179 +G RIERLY+LN PYIH H+ +A + ++S D+QSLYD +E+ I LEN Sbjct: 125 FGKESFRIERLYMLNDAPYIHYTHYFSAKM----ASTDLSDFDLQSLYDLVEDRGIHLEN 180 Query: 180 FKDRFFVEPAAAEVCLLLELPPGTHVLKRLRNSYDGEGRLIEHSIGSYNTALHHYLVSYD 239 F+D F V A + V L GT +LKR+R SYD G +IE+S G YNT + HY+V+YD Sbjct: 181 FRDEFAVGLAPSFVAEALGEKEGTALLKRMRYSYDEVGEVIEYSEGYYNTEMQHYVVNYD 240 Query: 240 A 240 Sbjct: 241 V 241 >C3EA65.1 C3EA65_BACTU Transcriptional regulator, GntR Length = 241 Score = 247 bits (630), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 127/241 (52%), Positives = 172/241 (71%), Gaps = 5/241 (2%) Query: 1 VSLKRKQGPLYQQIQKILKDRILHGIYPLGSIIPSEPLLEKEFGVSKMTVRGAVQELAQE 60 V++ RK+GPLY QI+ I++DRILHG+Y + + IPSEP LE+EF VSK+TVR A++ELAQE Sbjct: 5 VNVTRKKGPLYLQIKNIIRDRILHGVYAIHTNIPSEPQLEEEFKVSKITVRNAIKELAQE 64 Query: 61 GYVQKRSGIGTIVTRNTSYQKLSKGKRFTELLVEEGHRLEKRLLSSKLIANAAGTEEFNR 120 GY++K+SG GT V RNTS KLSKGK+FTE+LVEEG++++K+LL ++++ N GT F Sbjct: 65 GYLEKKSGKGTKVIRNTSATKLSKGKKFTEVLVEEGYKVQKKLLKAEIVQNEEGTVPFRL 124 Query: 121 YGPYCQRIERLYILNGQPYIHLMHFLTAAALPDGGAKEMST-DIQSLYDSLEENNIVLEN 179 +G RIERLY LN PYIH H+ +A + ++S D+QSLYD +E+ I LEN Sbjct: 125 FGKESFRIERLYTLNDAPYIHYTHYFSAGM----ASSDLSDFDLQSLYDLVEDRGIHLEN 180 Query: 180 FKDRFFVEPAAAEVCLLLELPPGTHVLKRLRNSYDGEGRLIEHSIGSYNTALHHYLVSYD 239 F+D F V A + V L GT +LKR+R SYD G +IE+S G YNT + HY+V+YD Sbjct: 181 FRDEFAVGLAPSFVAEALGEKEGTALLKRMRYSYDEVGEVIEYSEGYYNTEMQHYVVNYD 240 Query: 240 A 240 Sbjct: 241 V 241 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 0.137 0.390 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: 1,424,250,721 Number of extensions: 57501687 Number of successful extensions: 155645 Number of sequences better than 1.0e-05: 2417 Number of HSP's gapped: 155270 Number of HSP's successfully gapped: 2417 Length of query: 240 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 108 Effective length of database: 1,817,122,223 Effective search space: 196249200084 Effective search space used: 196249200084 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: 129 (54.3 bits)