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= 0001.2849.p (479 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311757|ref|YP_003775849.1| transcription regulator protein... 244 1e-65 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 94 2e-20 gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 86 5e-18 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 84 2e-17 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 83 5e-17 >gi|300311757|ref|YP_003775849.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 244 bits (623), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 152/432 (35%), Positives = 233/432 (53%), Gaps = 20/432 (4%) Query: 42 IAEDVATGQLQPEQRLPPQRKLAELLALDFTTVARAYTEAHRRGLVDSVVGRGTFVCGKR 101 + + ++ +L+P RLPPQR+LAE L +D TTV RAY EA RR L+++ GTFV Sbjct: 1 MEQAISDERLRPGDRLPPQRQLAEYLQVDLTTVTRAYGEARRRHLLEARGSAGTFVAA-- 58 Query: 102 RPRIPRVTEGRPNVDMSMNMPPEPESSELVALMQAGWNKV--NGKLRDLMRYQDFGGSAE 159 P+V + +D+SMN+PP P +L L++ G ++V + LM Y GGS+ Sbjct: 59 ----PKVDLSQ-LIDLSMNIPPPPAGIDLNDLLRQGMSQVLIHSDADLLMTYHLGGGSSA 113 Query: 160 DREAGALWLRRRGLVVEPQRLLVTPGAQCALLAILTMLVGPGGVLCCEDVTYPGLRALAG 219 DR AGA+W++ V+ R+L PGAQ AL A++ PG V+ E + YPGL +A Sbjct: 114 DRAAGAMWMQAMLGPVDEARVLACPGAQSALAALVLSQTRPGEVILAEPLAYPGLLTVAA 173 Query: 220 QLGIKLVGLPMDNEGIDAVAFAGACAQYAPKALYCNPTLLNPTTCTTSLSRRQALVEIAR 279 LG +++ + +D+EG+ ++ + +Y NPTL NPTT T +RR + +A Sbjct: 174 HLGRRVMAVDVDDEGMRPDLLMTMARRHQARLVYLNPTLQNPTTRTMPATRRAEIAALAT 233 Query: 280 HYEVAIIEDDAYGFLPRTAPPAIASLGSELTFYVTGLAKSVGAGLRIAYLVAPDASSAAR 339 ++ IIEDD Y AP +A FYV+ L+K + GLR AY++ P+ + Sbjct: 234 RLDLRIIEDDPYWRFAAHAPRPLAHYAPGHVFYVSTLSKCLLPGLRTAYVLMPERQAQEE 293 Query: 340 LTASLRATTVMASPITSTLATHWIRDGVADLALANIRKESMARQKIAARILPEHSYASEP 399 + +LR+ +M++P+ + L+T WI DG A L IR E+ AR ++A R L + S Sbjct: 294 VLGALRSFVLMSTPLMTALSTQWIHDGTAATLLEGIRSEAWARHELALRTL-GGAGLSAG 352 Query: 400 EAFHLWIKLRGGWQASSFAAQMRSSGIGVVASDAFAV----------SAAPEQAVRVCIG 449 HLW L WQ F + R +G+ VV+ +FAV S +R+ +G Sbjct: 353 GGIHLWKALPAHWQGQEFVLKARQAGLNVVSQSSFAVPPEGREPGADSGGQGACIRISLG 412 Query: 450 GIASRHDIQHAL 461 SR ++ +AL Sbjct: 413 RSRSRFELVNAL 424 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 94.4 bits (233), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 107/466 (22%), Positives = 195/466 (41%), Gaps = 44/466 (9%) Query: 17 PKNSTLWVPKLKKGSGPLYLAIANAIAEDVATGQLQPEQRLPPQRKLAELLALDFTTVAR 76 P + L + +K S L +AN +A + TG+L+ +RLP R+ A+ + +TV Sbjct: 4 PARAPLQLDLKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVE 63 Query: 77 AYTEAHRRGLVDSVVGRGTFVCGKRRPRIPRVTEGRPNVDMSMNMPPEP--ESSELVALM 134 AY + RG++ + G G FV + G+ ++ +PPEP +S+ L++ M Sbjct: 64 AYEQLVARGMLQARRGAGFFVAAR---------AGQSG-QHAVFVPPEPVIDSAWLLSEM 113 Query: 135 --------QAGWNKVNGKL----------RDLMR--------YQDFGGSAEDREAGALWL 168 +AG + GK R ++R Y G A R+ +L Sbjct: 114 FADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFL 173 Query: 169 RRRGLVVEPQRLLVTPGAQCALLAILTMLVGPGGVLCCEDVTYPGLRALAGQLGIKLVGL 228 L + +++L T GA AL ++ + PG + +D Y L A+ G+ ++G+ Sbjct: 174 GHWSLELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGV 233 Query: 229 PMDNEGIDAVAFAGACAQYAPKALYCNPTLLNPTTCTTSLSRRQALVEIARHYEVAIIED 288 P G+D + PK + L NPT + + + +++ A + ++ED Sbjct: 234 PRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVED 293 Query: 289 DAYGFLPRTAPPAIASL-GSELTFYVTGLAKSVGAGLRIAYLVAPDASSAARLTASLRAT 347 D + L + P +A+L G + YV +K++ LR+ Y +A A ++ + Sbjct: 294 DIFRELGQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGY-IACQRELARQIVHTKMVL 352 Query: 348 TVMASPITSTLATHWIRDGVADLALANIRKESMARQKIAARILPE---HSYASEPEAFHL 404 T+ S I L + + +G + + ++ Q L E + + Sbjct: 353 TLTNSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFS 412 Query: 405 WIKLRG-GWQASSFAAQMRSSGIGVVASDAFAVSAAPEQAVRVCIG 449 W + G A A + R GI + D F +SA + + R +G Sbjct: 413 WATIEGCELSAREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVG 458 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 86.3 bits (212), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 97/335 (28%), Positives = 142/335 (42%), Gaps = 38/335 (11%) Query: 33 PLYLAIANAIAEDVATGQLQPEQRLPPQRKLAELLALDFTTVARAYTEAHRRGLVDSVVG 92 P+ I I E + L +LP R LA L TV AY + G ++S G Sbjct: 44 PVNRQIYQLIREAILAHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYLESRPG 103 Query: 93 RGTFVCGKRRPRIPRVTEGRPNVDMSMNMPPEPESSELVALMQAG-----WN-------- 139 GTFV +IP E RP + E + + QAG W Sbjct: 104 AGTFVADTAPDQIPEAVE-RPEPLTDPSGKSELSARGAMLTRQAGVGERQWGAFMPGVPD 162 Query: 140 ------KVNGKLR---------DLMRYQDFGGSAEDREAGALWLR-RRGLVVEPQRLLVT 183 K+ G+L+ DL+ Y G A RE A +LR R + P ++L+T Sbjct: 163 VTCVPYKIWGRLQNKHWRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLIT 222 Query: 184 PGAQCALLAILTMLVGPGGVLCCEDVTYPGLRALAGQLGIKLVGLPMDNEGIDAVAFAGA 243 G +L ++ +L G ED Y G R++ LGI+ V + +D EG+ A Sbjct: 223 TGIHQSLDIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRL---A 279 Query: 244 CAQYAPKALYCNPTLLNPTTCTTSLSRRQALVEIARHYEVAIIEDDAYGFLPRTAPPAIA 303 + P+ + P+ P SLSRR+ L+E A ++V IIEDD Y R +A Sbjct: 280 NLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDD-YDSEFRYGGRPLA 338 Query: 304 SL----GSELTFYVTGLAKSVGAGLRIAYLVAPDA 334 SL + Y+ +K + GLRI +LV P++ Sbjct: 339 SLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPES 373 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 109/461 (23%), Positives = 176/461 (38%), Gaps = 43/461 (9%) Query: 28 KKGSGPLYLAIANAIAEDVATGQLQPEQRLPPQRKLAELLALDFTTVARAYTEAHRRGLV 87 + G PLY +A+ + G L R+P R L + +T + G + Sbjct: 36 ESGRQPLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWL 95 Query: 88 DSVVGRGTFVCGKRRPRIPRVTE----------------------------GRPNVDMSM 119 ++ G FV RR I V E G P++D+S Sbjct: 96 EARPRSGYFVRQPRRSAIRPVQEPKSLLAIDAGQFVGIHERVSKYIALRQAGAPHIDLS- 154 Query: 120 NMPPEPESSELVALMQAGWNKVNGKLRDLMRYQDFGGSAEDREAGALWLRRRGLVVEPQR 179 M P+ + L QA + + L G+A R+A A G+ ++ + Sbjct: 155 GMTCAPQLYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALNAGMRIDTEE 214 Query: 180 LLVTPGAQCALLAILTMLVGPGGVLCCEDVTYPGLRALAGQLGIKLVGLPMD-NEGIDAV 238 ++VT G AL + + GPG + E TY GL LG+K + +P + GI Sbjct: 215 VVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGISVE 274 Query: 239 AFAGACAQYAP-KALYCNPTLLNPTTCTTSLSRRQALVEIARHYEVAIIEDDAYGFLP-- 295 A A Y KA+ P L NP C + LV + ++ +IEDDAY L Sbjct: 275 ALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTELADG 334 Query: 296 RTAPPAIASLGSE-LTFYVTGLAKSVGAGLRIAYLVAPDASSAARLTASLRATTVMAS-P 353 P ++ S Y L K + G+R+ ++ ++ L+ T A+ Sbjct: 335 SVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKM---LKFTHTRANEE 391 Query: 354 ITSTLATHWIRDGVADLALANIRKE-SMARQKIAARI---LPEHSYASEPE-AFHLWIKL 408 T A +I D L +R+ R+++A I PE + + P LW++L Sbjct: 392 WTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWVEL 451 Query: 409 RGGWQASSFAAQMRSSGIGVVASDAFAVSAAPEQAVRVCIG 449 + + + G+GV F+ S+ VR+C G Sbjct: 452 PVQVCSQQLFERALAEGVGVSPGAIFSNSSRYGHFVRICCG 492 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 82.8 bits (203), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 118/450 (26%), Positives = 180/450 (40%), Gaps = 54/450 (12%) Query: 38 IANAIAEDVATGQLQPEQRLPPQRKLAELLALDFTTVARAYTEAHRRGLVDSVVGRGTFV 97 I A+ E V T +L +LP R +AE + TVARAY + G V + G G FV Sbjct: 36 IFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFV 95 Query: 98 --------------------CGKRRPRIPR--VTEGRPNVDMSMNMPPEPE-SSELVALM 134 ++R PR + G + D+ P+ ++ L A+ Sbjct: 96 RVDNQVANAQTQTAPAPLLTNWRQRLLDPRTLLHRGLGSGDLPAEWINVPQLAAALRAVS 155 Query: 135 QAGWNKVNGKLRDLMRYQDFGGSAEDREAGALWLRRRGLVVEPQRLLVTPGAQCAL-LAI 193 ++ N G Y D G R+ L G+ V P ++L T GA A+ L + Sbjct: 156 RSNINWAAG-------YGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTTLGATDAINLIV 208 Query: 194 LTMLVGPGGVLCCEDVTYPGLRALAGQL---GIKLVGLPMDNEGIDAVAFAGACAQYAPK 250 ++ L PG + +D PG L +L G+ +VG+ D +G D A AC Q+ P Sbjct: 209 MSYLRQPGMTVLVDD---PGSFLLMERLLASGMHIVGVARDADGPDITALQNACEQHGPT 265 Query: 251 ALYCNPTLLNPTTCTTSLSRRQALVEIARHYEVAIIEDDAYGFL-PRTAPPAIASLGS-- 307 +C L +P S R ++ +A + I+EDD YG L P P L S Sbjct: 266 FYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPHATRLASLD 325 Query: 308 --ELTFYVTGLAKSVGAGLRIAYLVAPDASSAARLTASL--RAT--TVMASPITSTLATH 361 + YV +K++GAG+R ++ L L RA+ ++ I L+ Sbjct: 326 QLQHVLYVGSFSKTLGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSLAERAIYRLLSEG 385 Query: 362 WIRDGVADL--ALANIRKESMARQKIAARILPEHSYASEPEA-FHLWIKLRGGWQASSFA 418 R L L R MA + +LP P+A +LW KL G A A Sbjct: 386 GYRRHCEQLRTRLDQARPRLMAALEALGIVLPH-----RPDAGLYLWGKLPGDLNAMEVA 440 Query: 419 AQMRSSGIGVVASDAFAVSAAPEQAVRVCI 448 +M ++G F+ A +R + Sbjct: 441 ERMLANGYLTAPGPVFSSGQAARSYMRFNV 470 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 0.319 0.133 0.392 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: 1,389,385 Number of extensions: 54807 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 219 Number of HSP's successfully gapped: 10 Length of query: 479 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 390 Effective length of database: 1,198,455 Effective search space: 467397450 Effective search space used: 467397450 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: 132 (55.5 bits)