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= 0563.0002.p (472 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0Z4U7.1 C0Z4U7_BREBN Probable transcriptional regulator 567 e-160 B3KCX1.1 B3KCX1_9BACI Regulatory protein GntR HTH 513 e-143 C3ALW4.1 C3ALW4_BACMY Transcriptional regulator, GntR family wit... 322 7e-86 C3B3W0.1 C3B3W0_BACMY Transcriptional regulator, GntR family wit... 321 1e-85 C3BKP9.1 C3BKP9_9BACI Transcriptional regulator, GntR family wit... 318 9e-85 >C0Z4U7.1 C0Z4U7_BREBN Probable transcriptional regulator Length = 473 Score = 567 bits (1462), Expect = e-160, Method: Compositional matrix adjust. Identities = 263/471 (55%), Positives = 354/471 (75%), Gaps = 2/471 (0%) Query: 2 KKAAGAEQSHPLFRQVYQYMHNRMERGEWKAHDKLPSIRLLAEELKVHRLTVFKAYRELT 61 +K S LF QVY Y+ R+ R EW+AH+KLPS+R LA EL VHRLTVFKA++ L Sbjct: 3 RKVLSNSHSDKLFEQVYDYLLERIRRDEWRAHEKLPSVRTLALELNVHRLTVFKAFQLLK 62 Query: 62 EDGRVYVKDKSGYYMSPVSSPTKESAEGDGAAISSYMLANPMSDIQRMPVSYQFSQALID 121 ++ VYVKDKSGYY+ P S ES + +S+Y+ + +S+I ++ +YQFS+ALI+ Sbjct: 63 QNRHVYVKDKSGYYVQPSSLLPVESM--NDPIVSAYVHKSYLSEIHQVQATYQFSKALIE 120 Query: 122 PGLLPNLFLSDYVKKVFDLYPKVMGTYSSVQGDEELRETLSRHFREQHRLHLSPRELLIT 181 P LLPN + S YVKKVFDLYPKV+GTYS+ QGD+ELRE L ++ ++ HLSP EL+IT Sbjct: 121 PNLLPNHYFSGYVKKVFDLYPKVLGTYSTTQGDQELREALCSYYVSRNHFHLSPDELMIT 180 Query: 182 SGAQQAINLIAGIVLGPLDAVLVERPTYSVAMDIFRRLGARLVPVEITPEGYDLQQVEEL 241 SG+Q+AI+L+A +++ P D VL+ERPTYS A+D+F R GA ++ +EI+P+GYDL+QVE L Sbjct: 181 SGSQEAIDLVARVLVKPRDVVLIERPTYSPAIDVFGRQGANMISIEISPDGYDLEQVELL 240 Query: 242 MRRHRPRMFYMNPTHHNPTGFTVPARQRKLLIELAERYRCLLVEDDPFRDMYFAEXXXXX 301 M++ +PR+FY+NPT HNPTG+TVPA QRK L+ELA +Y+CL+VEDDP RD+YF + Sbjct: 241 MQKEKPRLFYLNPTFHNPTGYTVPAEQRKRLVELAAKYQCLIVEDDPCRDIYFGDEPPLP 300 Query: 302 XXAYDTEGWVIYISSFSKYVAPGLRICAVGCRYPFMEQLITAKSLADNGTPILNQKIFLH 361 +YDT G+VIY+ SFSKY+ PGL I V CR M LI AKSL+D+G P+LNQKIFLH Sbjct: 301 FFSYDTAGYVIYLRSFSKYIGPGLSIATVACRPSIMNYLIQAKSLSDSGAPLLNQKIFLH 360 Query: 362 YYTSPRLQQHLGKLRIALQVHKEIVEEELAATGWEWTTPQGGLNLWVKLPEPVSVSALFV 421 Y+ S R+QQHL KLRIAL + ++I+EEEL+ T WEW++P GG NLWVKLP+ V + +L Sbjct: 361 YFFSERMQQHLAKLRIALAIRRDIMEEELSVTDWEWSSPPGGFNLWVKLPDSVPMDSLLA 420 Query: 422 RAMEQSISFVPGEILDPLGEMKSWLRLSYSFAGEGVLREGIRRLAALAREL 472 + +EQSI+FVPG I DPL E SW+R+S+S+ E LR+G++RL + R+L Sbjct: 421 KCIEQSITFVPGAICDPLREFSSWIRISFSYLNEHQLRDGLQRLVSTVRQL 471 >B3KCX1.1 B3KCX1_9BACI Regulatory protein GntR HTH Length = 482 Score = 513 bits (1320), Expect = e-143, Method: Compositional matrix adjust. Identities = 251/458 (54%), Positives = 335/458 (73%), Gaps = 5/458 (1%) Query: 17 VYQYMHNRMERGEWKAHDKLPSIRLLAEELKVHRLTVFKAYRELTEDGRVYVKDKSGYYM 76 VY + + GEWK DKLPS+R++AE LKVHRLTV KAY++L EDG V VK KSGY++ Sbjct: 19 VYDTVTKGIATGEWKESDKLPSVRVMAERLKVHRLTVLKAYQQLLEDGIVEVKYKSGYFV 78 Query: 77 S----PVSS-PTKESAEGDGAAISSYMLANPMSDIQRMPVSYQFSQALIDPGLLPNLFLS 131 + VS+ P S + A S Y+ + +SDI R V YQ S+ALIDP LLPN FLS Sbjct: 79 AGKAEDVSAEPLAFSPPWEYQARSLYVNRSRLSDIHRHQVDYQMSEALIDPALLPNAFLS 138 Query: 132 DYVKKVFDLYPKVMGTYSSVQGDEELRETLSRHFREQHRLHLSPRELLITSGAQQAINLI 191 ++VK+VFD+YPKV+ TYSSV GD ELRE ++R+F E+ + + P ELLIT+G+QQAI+LI Sbjct: 139 NHVKQVFDMYPKVLSTYSSVSGDLELREEMARYFMEKQGIAVHPEELLITTGSQQAIDLI 198 Query: 192 AGIVLGPLDAVLVERPTYSVAMDIFRRLGARLVPVEITPEGYDLQQVEELMRRHRPRMFY 251 + ++ DAVL+ERPTYS A+D+F + L+P+EITP+GYDL+ +E +MR +P++FY Sbjct: 199 SRSLVKSGDAVLIERPTYSPAIDVFVQQNVNLLPIEITPQGYDLEHIEYMMRTEKPKLFY 258 Query: 252 MNPTHHNPTGFTVPARQRKLLIELAERYRCLLVEDDPFRDMYFAEXXXXXXXAYDTEGWV 311 MNPT NPTG+TVPA QRK L+ELAERY C+LVED+ + D+YF + YDTEG+V Sbjct: 259 MNPTFQNPTGYTVPATQRKALVELAERYECILVEDEVYHDIYFGDPPPLPFFYYDTEGYV 318 Query: 312 IYISSFSKYVAPGLRICAVGCRYPFMEQLITAKSLADNGTPILNQKIFLHYYTSPRLQQH 371 I+I SFSKYVAPGLRI + R M+ ++ K+L+DNGTP+L QKIF HY+ S RLQ+H Sbjct: 319 IHIRSFSKYVAPGLRISVLAARPELMKVIVPVKALSDNGTPLLTQKIFQHYFFSSRLQEH 378 Query: 372 LGKLRIALQVHKEIVEEELAATGWEWTTPQGGLNLWVKLPEPVSVSALFVRAMEQSISFV 431 + KLRIAL++ K +E LAAT W W++P GGLNLW++LPE ++V AL + + +S++FV Sbjct: 379 VAKLRIALELRKARMENLLAATDWSWSSPGGGLNLWIRLPETINVDALLQQCLAESVAFV 438 Query: 432 PGEILDPLGEMKSWLRLSYSFAGEGVLREGIRRLAALA 469 PG I DPL M+SW+RLSYS+ E L EGIRRL ++ Sbjct: 439 PGRICDPLDRMESWIRLSYSYISEVQLDEGIRRLVEIS 476 >C3ALW4.1 C3ALW4_BACMY Transcriptional regulator, GntR family with aminotransferase domain Length = 503 Score = 322 bits (824), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 176/469 (37%), Positives = 267/469 (56%), Gaps = 4/469 (0%) Query: 1 MKKAAGAEQSHPLFRQVYQYMHNRMERGEWKAHDKLPSIRLLAEELKVHRLTVFKAYREL 60 MK E + P ++Q+Y + R++ G D LPS+R +A++LK+ LTV KAY++L Sbjct: 16 MKIVLRKESNIPFYQQIYMQVVERIQSGMLLHGDSLPSLRTIADDLKISILTVRKAYKQL 75 Query: 61 TEDGRVYVKDKSGYYMSPVSSPTKESAEGDGAAISSYMLANPMSDIQRMPVSYQFSQALI 120 G V +K G Y+ + D S + + + Y FSQA++ Sbjct: 76 ETKGYVQIKQGKGVYIHKHEHRKHQPTPYDWQHTKSINVMRSQYVMNQHRKYYDFSQAIL 135 Query: 121 DPGLLPNLFLSDYVKKVFDLYPKVMGTYSSVQGDEELRETLSRHFREQHRLHLSPRELLI 180 P LLPN FLSD ++K+ D ++ TY VQGDEELR ++R+ ++ RL + P LLI Sbjct: 136 YPRLLPNPFLSDEMQKIIDKDQMILATYGPVQGDEELRIEIARYLKDYQRLAVDPSNLLI 195 Query: 181 TSGAQQAINLIAGIVLGPLDAVLVERPTYSVAMDIFRRLGARLVPVEITPEGYDLQQVEE 240 TSGAQQ I+LIA +L P D V++E P Y A+D+F G +++P+E+ +G ++E Sbjct: 196 TSGAQQGIDLIAQTLLQPGDTVIIESPCYGAAIDVFINKGVKIIPIELDEQGIRSDLIDE 255 Query: 241 LMRRHRPRMFYMNPTHHNPTGFTVPARQRKLLIELAERYRCLLVEDDPFRDMYFAEXXX- 299 + ++ RP + Y+NPT NPTG + +++R L+ELAE Y ++EDD F ++YF E Sbjct: 256 VCQKQRPFLVYVNPTFQNPTGTIMSSQRRNELVELAELYHFFIIEDDSFGEIYFDEVIIP 315 Query: 300 XXXXAYDTEGWVIYISSFSKYVAPGLRICAVGCRYPFMEQLITAKSLADNGTPILNQKIF 359 +DT G VIY+ FSK +APGLRI A+ P E L K+ D G+P+L QK Sbjct: 316 PPLKTFDTNGHVIYLKGFSKTLAPGLRIAALAVEGPIFEWLYAVKASMDIGSPLLTQKAL 375 Query: 360 LHYYTSPRLQQHLGKLRIALQVHKEIVEEELAATGWE--WTTPQGGLNLWVKLPEPVSVS 417 L + + R++ HL KLR ALQ+ ++ E L + E + P GG NLW+ LP+ ++ Sbjct: 376 LPFLRAERMKNHLEKLRTALQLRRDTTLEILTSLTGEIHFQKPLGGFNLWITLPDSINAF 435 Query: 418 ALFVRAMEQSISFVPGEILDPLGEMK-SWLRLSYSFAGEGVLREGIRRL 465 L +A E ++SF+PG E K ++LR+SYS E + G++R Sbjct: 436 MLLKKANEANVSFLPGTACFLNHESKYNYLRISYSMLNEKDMLIGLKRF 484 >C3B3W0.1 C3B3W0_BACMY Transcriptional regulator, GntR family with aminotransferase domain Length = 503 Score = 321 bits (822), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 176/469 (37%), Positives = 267/469 (56%), Gaps = 4/469 (0%) Query: 1 MKKAAGAEQSHPLFRQVYQYMHNRMERGEWKAHDKLPSIRLLAEELKVHRLTVFKAYREL 60 MK E + P ++Q+Y + R++ G D LPS+R +A++LK+ LTV KAY++L Sbjct: 16 MKIVLRKESNIPFYQQIYMQVVERIQSGMLLHGDSLPSLRTIADDLKISILTVRKAYKQL 75 Query: 61 TEDGRVYVKDKSGYYMSPVSSPTKESAEGDGAAISSYMLANPMSDIQRMPVSYQFSQALI 120 G V +K G Y+ + D S + + + Y FSQA++ Sbjct: 76 EIKGYVQIKQGKGVYIHKHEHRKHQPTPYDWQHTKSINVMRSQYVMNQHRKYYDFSQAIL 135 Query: 121 DPGLLPNLFLSDYVKKVFDLYPKVMGTYSSVQGDEELRETLSRHFREQHRLHLSPRELLI 180 P LLPN FLSD ++K+ D ++ TY VQGDEELR ++R+ ++ RL + P LLI Sbjct: 136 YPRLLPNPFLSDEMQKIIDKDQMILATYGPVQGDEELRIEIARYLKDYQRLAVDPSNLLI 195 Query: 181 TSGAQQAINLIAGIVLGPLDAVLVERPTYSVAMDIFRRLGARLVPVEITPEGYDLQQVEE 240 TSGAQQ I+LIA +L P D V++E P Y A+D+F G +++P+E+ +G ++E Sbjct: 196 TSGAQQGIDLIAQTLLQPGDTVIIESPCYGAAIDVFINKGVKIIPIELDEQGIRSDLIDE 255 Query: 241 LMRRHRPRMFYMNPTHHNPTGFTVPARQRKLLIELAERYRCLLVEDDPFRDMYFAEXXX- 299 + ++ RP + Y+NPT NPTG + +++R L+ELAE Y ++EDD F ++YF E Sbjct: 256 VCQKQRPVLVYVNPTFQNPTGTIMSSQRRNELVELAELYHFFIIEDDSFGEIYFDEVIIP 315 Query: 300 XXXXAYDTEGWVIYISSFSKYVAPGLRICAVGCRYPFMEQLITAKSLADNGTPILNQKIF 359 +DT G VIY+ FSK +APGLRI A+ P E L K+ D G+P+L QK Sbjct: 316 PPLKTFDTNGHVIYLKGFSKTLAPGLRIAALAVEGPIFEWLYAVKASMDIGSPLLTQKAL 375 Query: 360 LHYYTSPRLQQHLGKLRIALQVHKEIVEEELAATGWE--WTTPQGGLNLWVKLPEPVSVS 417 L + + R++ HL KLR ALQ+ ++ E L + E + P GG NLW+ LP+ ++ Sbjct: 376 LPFLRAERMKNHLEKLRTALQLRRDTTLEILTSLTGEIHFQKPLGGFNLWITLPDSINAF 435 Query: 418 ALFVRAMEQSISFVPGEILDPLGEMK-SWLRLSYSFAGEGVLREGIRRL 465 L +A E ++SF+PG E K ++LR+SYS E + G++R Sbjct: 436 MLLKKANEANVSFLPGTACFLNHESKYNYLRISYSMLNEKDMLIGLKRF 484 >C3BKP9.1 C3BKP9_9BACI Transcriptional regulator, GntR family with aminotransferase domain Length = 503 Score = 318 bits (814), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 175/469 (37%), Positives = 266/469 (56%), Gaps = 4/469 (0%) Query: 1 MKKAAGAEQSHPLFRQVYQYMHNRMERGEWKAHDKLPSIRLLAEELKVHRLTVFKAYREL 60 MK E + P ++Q+Y + R++ G D LPS+R +A++LK+ LTV KAY++L Sbjct: 16 MKIVLRKESNIPFYQQIYMQVVERIQSGMLLHGDSLPSLRTIADDLKISILTVRKAYKQL 75 Query: 61 TEDGRVYVKDKSGYYMSPVSSPTKESAEGDGAAISSYMLANPMSDIQRMPVSYQFSQALI 120 G V +K G Y+ + D S + + + Y FSQA++ Sbjct: 76 ETKGYVQIKQGKGVYIHKHEHRKHQPTPYDWQHTKSINVMRSQYVMNQHRKYYDFSQAIL 135 Query: 121 DPGLLPNLFLSDYVKKVFDLYPKVMGTYSSVQGDEELRETLSRHFREQHRLHLSPRELLI 180 P LLPN FLSD ++K+ D ++ TY VQGDEELR ++R+ ++ RL + P LLI Sbjct: 136 YPRLLPNPFLSDEMQKIIDKDQMILATYGPVQGDEELRIEIARYLKDYQRLAVDPSNLLI 195 Query: 181 TSGAQQAINLIAGIVLGPLDAVLVERPTYSVAMDIFRRLGARLVPVEITPEGYDLQQVEE 240 TSGAQQ I+LIA +L P D V++E P Y A+D+F G +++P+E+ +G ++E Sbjct: 196 TSGAQQGIDLIAQTLLQPGDTVIIESPCYGAAIDVFINKGVKIIPIELDEQGIRSDLIDE 255 Query: 241 LMRRHRPRMFYMNPTHHNPTGFTVPARQRKLLIELAERYRCLLVEDDPFRDMYFAEXXX- 299 + ++ RP + Y+NPT NPTG + +++R L+ELAE Y ++EDD F ++YF E Sbjct: 256 VCQKQRPVLVYVNPTFQNPTGTIMSSQRRNELVELAELYHFFIIEDDSFGEIYFDEVIIP 315 Query: 300 XXXXAYDTEGWVIYISSFSKYVAPGLRICAVGCRYPFMEQLITAKSLADNGTPILNQKIF 359 +DT G VIY+ FSK +APGLRI A+ P E L K+ D G+P+L QK Sbjct: 316 PPLKTFDTNGHVIYLKGFSKTLAPGLRIAALAVEGPIFEWLYAVKASMDIGSPLLTQKAL 375 Query: 360 LHYYTSPRLQQHLGKLRIALQVHKEIVEEELAATGWE--WTTPQGGLNLWVKLPEPVSVS 417 L + + R++ L KLR ALQ+ ++ E L + E + P GG NLW+ LP+ ++ Sbjct: 376 LPFLRAERMKNLLEKLRTALQLRRDTTLEILTSLTGEIHFQKPLGGFNLWITLPDSINAF 435 Query: 418 ALFVRAMEQSISFVPGEILDPLGEMK-SWLRLSYSFAGEGVLREGIRRL 465 L +A E ++SF+PG E K ++LR+SYS E + G++R Sbjct: 436 MLLKKANEANVSFLPGTACFLNHESKYNYLRISYSMLNEKDMLIGLKRF 484 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 0.321 0.137 0.408 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: 2,883,784,513 Number of extensions: 122156831 Number of successful extensions: 327947 Number of sequences better than 1.0e-05: 5712 Number of HSP's gapped: 317601 Number of HSP's successfully gapped: 5731 Length of query: 472 Length of database: 3,060,696,203 Length adjustment: 139 Effective length of query: 333 Effective length of database: 1,751,175,118 Effective search space: 583141314294 Effective search space used: 583141314294 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 (21.9 bits) S2: 133 (55.8 bits)