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= 0037.0007.p (398 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 815 0.0 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 152 4e-38 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 138 9e-34 gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 127 1e-30 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 126 3e-30 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 815 bits (2106), Expect = 0.0, Method: Compositional matrix adjust. Identities = 398/398 (100%), Positives = 398/398 (100%) Query: 1 MKLENPAPLQWQFSQRADAMKSSAIREILKVTMRPDITSFAGGLPSPLTFPVEHMKTAFD 60 MKLENPAPLQWQFSQRADAMKSSAIREILKVTMRPDITSFAGGLPSPLTFPVEHMKTAFD Sbjct: 1 MKLENPAPLQWQFSQRADAMKSSAIREILKVTMRPDITSFAGGLPSPLTFPVEHMKTAFD 60 Query: 61 RVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQGLDLLGKVLI 120 RVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQGLDLLGKVLI Sbjct: 61 RVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQGLDLLGKVLI 120 Query: 121 DEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETIEAIAGGARMLYSLPNFQN 180 DEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETIEAIAGGARMLYSLPNFQN Sbjct: 121 DEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETIEAIAGGARMLYSLPNFQN 180 Query: 181 PTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNPSGVIYMGSFSK 240 PTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNPSGVIYMGSFSK Sbjct: 181 PTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNPSGVIYMGSFSK 240 Query: 241 VLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLY 300 VLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLY Sbjct: 241 VLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLY 300 Query: 301 GDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAGALLNEAVEQEKVAFVPGAP 360 GDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAGALLNEAVEQEKVAFVPGAP Sbjct: 301 GDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAGALLNEAVEQEKVAFVPGAP 360 Query: 361 FYANVAQKNTLRLSFVTVPPEQIRAGVERLGKLIASKL 398 FYANVAQKNTLRLSFVTVPPEQIRAGVERLGKLIASKL Sbjct: 361 FYANVAQKNTLRLSFVTVPPEQIRAGVERLGKLIASKL 398 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 152 bits (384), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 106/363 (29%), Positives = 175/363 (48%), Gaps = 13/363 (3%) Query: 40 FAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISA 99 +G +P + VE +K A R L ++ ++ P +G R+ +A G +I Sbjct: 153 LSGMTCAPQLYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALNAGMRIDT 212 Query: 100 EQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVP-SDEFGLQ 158 E+V++ G + L+L + + G + VE+P+Y G LQA G K +P S G+ Sbjct: 213 EEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGIS 272 Query: 159 PETIEAIA---GGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALS 215 E +E G + + +PN QNP G +P + + +LV C +L LPLIEDD Y L+ Sbjct: 273 VEALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTELA 332 Query: 216 YQNAPLPKMLSMNPSG-VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHT-- 272 + + S + +G VIY S +KVL PG+RLG++ R E+ K HT Sbjct: 333 DGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGR----WHERVKMLKFTHTRA 388 Query: 273 -AQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIW 331 + TQ+ + I D+H+ +R++ Q + M +++ YFP + P GG+ +W Sbjct: 389 NEEWTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLW 448 Query: 332 VTLPEHIDAGALLNEAVEQEKVAFVPGAPFYANVAQKNTLRLSFVTVPPEQIRAGVERLG 391 V LP + + L A+ E V PGA F + + +R+ ++ + RLG Sbjct: 449 VELPVQVCSQQLFERALA-EGVGVSPGAIFSNSSRYGHFVRICCGHPFNRELDQALRRLG 507 Query: 392 KLI 394 L+ Sbjct: 508 GLV 510 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 138 bits (347), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 99/390 (25%), Positives = 178/390 (45%), Gaps = 12/390 (3%) Query: 11 WQFSQRADAMKSSAIREILKVTMRPDITSFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMA 70 WQ S D S + LK + P+P FP + R+ + + Sbjct: 92 WQESTEVDV--SRLVLATLKTIQQDGTVPLGSPYPNPALFPSHRLAQYAGRIARHASQSS 149 Query: 71 LQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVET 130 + G+ L IA NG ++ E++++ G+ + ++L + + G + VET Sbjct: 150 VFDDLPPGHPELLRQIARRYLENGLKVDPEEIVITVGATEAINLCLQAVARPGDTIAVET 209 Query: 131 PSYLGALQAFALYGAKFESVPSD-----EFGLQPETIEAIAGGARMLYSLPNFQNPTGRT 185 P++ L A G + +P+D + G E ++ A A M+ +PNFQNP G Sbjct: 210 PTFYAMLHAIERLGMRALEIPTDPQRGIDVGALEERMKTQAIAACMV--MPNFQNPLGFQ 267 Query: 186 LPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNPSG-VIYMGSFSKVLTP 244 +P + +LV + +P+IE+ Y L Y NA + + + G V++ SFSK LT Sbjct: 268 MPDSEKERLVRLAEQHQMPVIENAVYSELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTS 327 Query: 245 GIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQC 304 R+G+ + P ++E+ K L T Q + E + G ++H+ +R+ + Q Sbjct: 328 AYRIGWAM-PGRYRAQVEKLKFLNTLATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQR 386 Query: 305 QAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAGALLNEAVEQEKVAFVPGAPFYAN 364 M + ++FPA S+P+GG +WV LP+ +DA L ++ + PG F A Sbjct: 387 DMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGVDAMELYRRSLAL-GITVAPGRIFAAT 445 Query: 365 VAQKNTLRLSFVTVPPEQIRAGVERLGKLI 394 + +RL++ ++ ++ +GKL+ Sbjct: 446 NRYSHFIRLNYSYAWSKETEQALKLVGKLV 475 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 91/363 (25%), Positives = 161/363 (44%), Gaps = 5/363 (1%) Query: 39 SFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLST-NGAQI 97 +F G+P P + ++ + L YGP GY LRE IA L Sbjct: 155 AFMPGVPDVTCVPYKIWGRLQNKHWRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNC 214 Query: 98 SAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGL 157 + QVL+ +G Q LD++ K+L + G VE P Y G G + + D+ G+ Sbjct: 215 TPSQVLITTGIHQSLDIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGM 274 Query: 158 QPETIEAIAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQ 217 + + + R + + P+ Q P G + RR L+E A + +IEDD Y Sbjct: 275 RMR-LANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYG 333 Query: 218 NAPLPKMLSMNPSG-VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLT 276 PL + M+ V+YMG+FSK++ PG+R+G++V P L + Sbjct: 334 GRPLASLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLARAFSTGIAELYRNGQVFL 393 Query: 277 QMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPE 336 Q + + + +G H+ +R LY ++ Q + ++ ++F + + E G+ + + LP+ Sbjct: 394 QATLADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQ 453 Query: 337 HIDAGALLNEAVEQEKVAFVPGAPFYANV-AQKNTLRLSFVTVPPEQIRAGVERLGKLIA 395 D L+ E + P + +Y + + L L + +VP ++I ++L +I Sbjct: 454 ECD-DVLICEQALAAGIVVRPLSRYYMHARGARRGLLLGYASVPNDEIARAFDKLAAVIK 512 Query: 396 SKL 398 L Sbjct: 513 PHL 515 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 126 bits (316), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/337 (25%), Positives = 149/337 (44%), Gaps = 19/337 (5%) Query: 53 EHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQGL 112 E + A R++ G + YG GY PLR+ I L ++ EQVL G+ Q L Sbjct: 136 EGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQAL 195 Query: 113 DLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETIEAIAGGA--R 170 DL+ + + G VL++ P Y + L G VP G+ + +E +A + Sbjct: 196 DLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPK 255 Query: 171 MLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNPS 230 M ++ QNPTG + ++++ R G ++EDD + L P+ L Sbjct: 256 MFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPMLAALD-GLQ 314 Query: 231 GVIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLTQMVVYEAIKDGFLD 290 VIY+GS+SK + P +R+GY+ R L ++ K L +++ + +V+ + +G Sbjct: 315 RVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHR 374 Query: 291 QHVPTIRKLYGDQCQAMLDALQQYFPASCS------WSKPEGGMFIWVTLPEHIDAGALL 344 +HV T+ A L + Q A S ++ GGMF W T+ + + Sbjct: 375 RHVQTL--------NATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCELSAREI 426 Query: 345 NEAVEQEKVAFVPGAPFYANVAQKNTLRLS--FVTVP 379 + Q+ + PG F+ + + + R + + VP Sbjct: 427 ADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYADVP 463 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.318 0.135 0.394 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,325,821 Number of extensions: 57944 Number of successful extensions: 217 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 11 Length of query: 398 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 311 Effective length of database: 1,207,925 Effective search space: 375664675 Effective search space used: 375664675 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 (21.7 bits) S2: 131 (55.1 bits)