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= 0005.0189.p (388 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312337|ref|YP_003776429.1| transcription regulator protein... 621 e-179 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 280 1e-76 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 256 2e-69 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 234 1e-62 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 106 4e-24 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 621 bits (1601), Expect = e-179, Method: Compositional matrix adjust. Identities = 295/370 (79%), Positives = 328/370 (88%), Gaps = 1/370 (0%) Query: 15 SRAMDVVWLMREQLKSDPEHLRLGDGFPPVDWLNEVRLDKFHQKVVRTGLGALFGYGSRF 74 SRAMDVVWLMREQLK DP LRLGDGFPPV+WL++VRLDKFHQKVVRTG+GALFGYGSRF Sbjct: 87 SRAMDVVWLMREQLKHDPGQLRLGDGFPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRF 146 Query: 75 GYQPLRQHLVHRLANHGIDASASQIVLTHGANQALDIVIRNFVKPGDRVLVDEPGYYMLF 134 GY PLRQHLVH+LA HGI+A QIVLTHGANQALDIVIR+F++PGDRVLVDEPGYYML+ Sbjct: 147 GYLPLRQHLVHKLAQHGIEAGTGQIVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLY 206 Query: 135 GKLKLGGARIVGIPRLADGPDLEALEREL-KIGKPCLFFTQTLAHNPTGSDTSPHKAHKI 193 GKLKL GARI+GIPRL DGPD+ LEREL + GKP LFFTQ+LAHNPT SDTSPHKAH+I Sbjct: 207 GKLKLSGARIIGIPRLPDGPDVAVLERELHRPGKPPLFFTQSLAHNPTASDTSPHKAHRI 266 Query: 194 LQLADRYNAIVVENDTFADFKPNAAPRISTLDQLRRTIYVGSFSKSVSAALRVGFLACHR 253 LQLADRY AI+VEND FADFKP APRI+TLDQLRRT+YVGSFSKSVSAALRVGF+ACHR Sbjct: 267 LQLADRYQAIIVENDAFADFKPATAPRIATLDQLRRTVYVGSFSKSVSAALRVGFIACHR 326 Query: 254 DLASDLADIKMLVHVSSSEYCERTLDVILSEGHYSRHAARLRDRLTQATESSRRLLENMG 313 DLASDLADIKMLVH+SSSEYCERTLDVILS+GH+SRH ARLR+RL QATE +R LE +G Sbjct: 327 DLASDLADIKMLVHMSSSEYCERTLDVILSDGHFSRHTARLRERLAQATEQARAQLEGLG 386 Query: 314 AELFCSPAQSMYLWAAMPGYPDSKALAQALMRQNIVTAPGSIFHIDTEAPSRWSRYNVGL 373 AELFC+P Q+MYLWA P + D+K LAQ LM++ IV APGSIFH+DTE WSR+NVGL Sbjct: 387 AELFCAPQQAMYLWARFPWFEDAKRLAQRLMQRQIVLAPGSIFHVDTEQTQPWSRFNVGL 446 Query: 374 LGDPRFAAAM 383 L D RFA AM Sbjct: 447 LADARFADAM 456 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 280 bits (716), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/377 (40%), Positives = 223/377 (59%), Gaps = 11/377 (2%) Query: 16 RAMDVVWLMREQLKSDPEHLRLGDGFPPVDWLNEVRLDKFHQKVVRTGLGALFGYGSRFG 75 R +DVVWL+R + P G G P DWL+ + + V R L GYG+ G Sbjct: 126 RGLDVVWLVRNMFRQMPPAKMPGGGLLPPDWLDGELIANALRAVSRDNPQLLLGYGTPQG 185 Query: 76 YQPLRQHLVHRLANHGIDASASQIVLTHGANQALDIVIRNFVKPGDRVLVDEPGYYMLFG 135 + PLRQ L +LA I A+ QIVLT G Q LD V R+F++PGD + VD+P ++++FG Sbjct: 186 FLPLRQQLQLKLAELEIAAAPEQIVLTTGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFG 245 Query: 136 KLKLGGARIVGIPRLADGPDLEALERELKIGKPCLFFTQTLAHNPTGSDTSPHKAHKILQ 195 GA++VGIPRL DGPD+ L + KP L+ ++ HNPT + S KA ++L+ Sbjct: 246 SFAALGAKVVGIPRLGDGPDIARLRELAAVHKPKLYVINSVLHNPTSTSLSAAKAFQVLR 305 Query: 196 LADRYNAIVVENDTFADFKPNA----APRISTLDQLRRTIYVGSFSKSVSAALRVGFLAC 251 +A+ ++ ++VE+D + D P + A RI+ LDQL+R IY+G FSK++SA LRVG++A Sbjct: 306 IAEEHDFVIVEDDIYCDMHPGSAVQPATRIAALDQLQRVIYLGGFSKTLSANLRVGYIAT 365 Query: 252 HRDLASDLADIKMLVHVSSSEYCERTLDVILSEGHYSRHAARLRDRLTQATESSRRLLEN 311 +LA LAD K+L +++ E ER +LSEGHY +HA R+R RL A + R LE Sbjct: 366 SAELARSLADRKLLSTLTTGEIGERVAYKVLSEGHYRKHAERVRARLNGARDKVMRQLER 425 Query: 312 MGAELFCSPAQSMYLWAAMPGYPDSKALAQALMRQNIVTAPGSIFHIDTEAPSRWSRYNV 371 +G ++ +P M+LW D+ + +A M++ + APGS+F + PS + R NV Sbjct: 426 LGMDVVEAPPCGMFLWVDTGR--DTNVMTEAAMQEGFLLAPGSLFS-PAQLPSTYMRINV 482 Query: 372 GLLGDP---RF-AAAMQ 384 + DP RF A AM+ Sbjct: 483 ASMADPGIWRFLAQAME 499 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 256 bits (654), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 134/376 (35%), Positives = 211/376 (56%), Gaps = 4/376 (1%) Query: 13 PXSRAMDVVWLMREQLKSDPEHLRLGDGFPPVDWLNEVRLDKFHQKVVRTGLGALFGYGS 72 P +D WL+ E + ++ G G+ P WLN+ L + ++++R+ GYG Sbjct: 99 PPEPVIDSAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGH 158 Query: 73 RFGYQPLRQHLVHRLANHGIDASASQIVLTHGANQALDIVIRNFVKPGDRVLVDEPGYYM 132 +GY PLRQ + L + ++ Q++ THGA QALD+VIR +PGD VL+D+PGY Sbjct: 159 PYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCN 218 Query: 133 LFGKLKLGGARIVGIPRLADGPDLEALERELKIGKPCLFFTQTLAHNPTGSDTSPHKAHK 192 L L+L G ++G+PR G D + LE + P +FFT ++ NPTG+ +P A + Sbjct: 219 LIAMLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMR 278 Query: 193 ILQLADRYNAIVVENDTFADFKPNAAPRISTLDQLRRTIYVGSFSKSVSAALRVGFLACH 252 +LQ A+R+ VVE+D F + P ++ LD L+R IYVGS+SK+++ +LRVG++AC Sbjct: 279 VLQAAERHGFWVVEDDIFRELGQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQ 338 Query: 253 RDLASDLADIKMLVHVSSSEYCERTLDVILSEGHYSRHAARLRDRLTQATESSRRLLENM 312 R+LA + KM++ +++SE ER + +L+EGH+ RH L L A + L + Sbjct: 339 RELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEV 398 Query: 313 GAELFCSPAQSMYLWAAMPGYP-DSKALAQALMRQNIVTAPGSIFHIDTEAPSRWS-RYN 370 G F + M+ WA + G ++ +A ++ I APG FH+ AP + S R+N Sbjct: 399 GLTPFTAARGGMFSWATIEGCELSAREIADRARQKGIWLAPGDFFHLS--APHQTSFRFN 456 Query: 371 VGLLGDPRFAAAMQGL 386 VG P ++GL Sbjct: 457 VGYADVPELFDFLRGL 472 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 234 bits (596), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 128/343 (37%), Positives = 199/343 (58%), Gaps = 6/343 (1%) Query: 34 HLRLGDGFPPVDWLNEVRLDKFHQKVVRTGLGALFGYGSRFGYQPLRQHLVHRLANHGID 93 H LG G P +W+N +L + V R+ + GYG GY PLRQ L +LA+ G+D Sbjct: 129 HRGLGSGDLPAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVD 188 Query: 94 ASASQIVLTHGANQALDIVIRNFVK-PGDRVLVDEPGYYMLFGKLKLGGARIVGIPRLAD 152 + Q++ T GA A+++++ ++++ PG VLVD+PG ++L +L G IVG+ R AD Sbjct: 189 VTPPQVLTTLGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDAD 248 Query: 153 GPDLEALERELKIGKPCLFFTQTLAHNPTGSDTSPHKAHKILQLADRYNAIVVENDTFAD 212 GPD+ AL+ + P +F Q+L H+P + SP +A +IL+LA+R+N +VE+DT+ D Sbjct: 249 GPDITALQNACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGD 308 Query: 213 FKPNA----APRISTLDQLRRTIYVGSFSKSVSAALRVGFLACHRDLASDLADIKMLVHV 268 P A R+++LDQL+ +YVGSFSK++ A +R GF+A + L K++ Sbjct: 309 LAPAHRSPHATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRA 368 Query: 269 SSSEYCERTLDVILSEGHYSRHAARLRDRLTQATESSRRLLENMGAELFCSPAQSMYLWA 328 S+ ER + +LSEG Y RH +LR RL QA LE +G L P +YLW Sbjct: 369 SNGSLAERAIYRLLSEGGYRRHCEQLRTRLDQARPRLMAALEALGIVLPHRPDAGLYLWG 428 Query: 329 AMPGYPDSKALAQALMRQNIVTAPGSIFHIDTEAPSRWSRYNV 371 +PG ++ +A+ ++ +TAPG +F +A + R+NV Sbjct: 429 KLPGDLNAMEVAERMLANGYLTAPGPVFS-SGQAARSYMRFNV 470 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 106 bits (264), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 81/344 (23%), Positives = 153/344 (44%), Gaps = 10/344 (2%) Query: 24 MREQLKSD--PEHLRLGDGFP-PVDWLNEVRLDKFHQKVVRTGLGALFGYGSRFGYQPLR 80 +RE LK P+ G P P+ + E F + + + G AL YG GY PLR Sbjct: 25 IREILKVTMRPDITSFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMAL-QYGPTDGYLPLR 83 Query: 81 QHLVHRLANHGIDASASQIVLTHGANQALDIVIRNFVKPGDRVLVDEPGYYMLFGKLKLG 140 + + L+ +G SA Q+++ G+ Q LD++ + + G +VLV+ P Y L Sbjct: 84 EWIAASLSTNGAQISAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALY 143 Query: 141 GARIVGIPRLADGPDLEALERELKIGKPCLFFTQTLAHNPTGSDTSPHKAHKILQLADRY 200 GA+ +P +D L+ E G + ++ NPTG + K+++ R Sbjct: 144 GAKFESVP--SDEFGLQPETIEAIAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARL 201 Query: 201 NAIVVENDTFADFKPNAAPRISTLD-QLRRTIYVGSFSKSVSAALRVGFLACHRDLASDL 259 ++E+D + AP L IY+GSFSK ++ +R+G++ R L + Sbjct: 202 GLPLIEDDPYGALSYQNAPLPKMLSMNPSGVIYMGSFSKVLTPGIRLGYVVAPRPLILKM 261 Query: 260 ADIKMLVHVSSSEYCERTLDVILSEGHYSRHAARLRDRLTQATESSRRLLENM--GAELF 317 K + +++ + + + +G +H +R ++ L+ + + Sbjct: 262 EQAKQATDLHTAQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSW 321 Query: 318 CSPAQSMYLWAAMPGYPDSKA-LAQALMRQNIVTAPGSIFHIDT 360 P M++W +P + D+ A L +A+ ++ + PG+ F+ + Sbjct: 322 SKPEGGMFIWVTLPEHIDAGALLNEAVEQEKVAFVPGAPFYANV 365 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 0.322 0.136 0.409 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: 1,274,218 Number of extensions: 53780 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 178 Number of HSP's successfully gapped: 10 Length of query: 388 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 301 Effective length of database: 1,207,925 Effective search space: 363585425 Effective search space used: 363585425 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: 131 (55.1 bits)