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= 0007.0135.p (482 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 248 1e-66 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 157 2e-39 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 119 6e-28 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 118 1e-27 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 116 3e-27 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 248 bits (632), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 162/470 (34%), Positives = 240/470 (51%), Gaps = 12/470 (2%) Query: 16 QVYRQLRDAIQSGRLAPGEQVPPSRLLAIQLGLSRKTVSEAYSRLTLDKLLVGRTGSGTF 75 Q+Y+ +R+AI + L G Q+P SR LA++LG SR TV+ AY +L + L R G+GTF Sbjct: 48 QIYQLIREAILAHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYLESRPGAGTF 107 Query: 76 V--NAPPEPKSKPKRFESGDLASGKLIAHWLDQSFPLLMRHVGPETRSQYDFMGGIPVRR 133 V AP + +R E SGK L +L R G R FM G+P Sbjct: 108 VADTAPDQIPEAVERPEPLTDPSGK---SELSARGAMLTRQAGVGERQWGAFMPGVPDVT 164 Query: 134 QFPQEEWRQCVLYGLRQISESCGFYAETEGLPALREAIARHVSFSRGVQCTAADVLVTNG 193 P + W + R+ + Y G LRE IA ++ +R V CT + VL+T G Sbjct: 165 CVPYKIWGRLQNKHWRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTG 224 Query: 194 AQQALDLIARVLVEPGSVVAVEDPGYPPARMLFSAQGARVESVPVDSEGMRVDL--IPDG 251 Q+LD++ ++L E G VEDP Y R + ++ G + + VD EGMR+ L + Sbjct: 225 IHQSLDIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRLANLRRP 284 Query: 252 TRLIYATPAHQFPLGMPMSPARRAALLARARELRAIVIEDDYDSEFRYEGRPMDSLQSMD 311 R I TP+HQ+PLGM MS +RR LL A + +IEDDYDSEFRY GRP+ SLQ MD Sbjct: 285 PRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMD 344 Query: 312 QDGLVAFVGTFSKSMNPELRVGYVIAPPSILRAMTVVKGLSDWHTP--TMTQWAMARFID 369 V ++GTFSK M P LR+G+++ P S+ RA + G+++ + Q +A F+ Sbjct: 345 TQDRVLYMGTFSKIMFPGLRIGFLVVPESLARAFST--GIAELYRNGQVFLQATLADFMA 402 Query: 370 EGYLQKHIRRCHGIYVARREKLHAALNGTLKPWMCAVPTTAGFHLAARMTAEVDMTQLLR 429 EG+ HIR+ +Y R + L ++N M AG HL + E D + Sbjct: 403 EGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDDVLICE 462 Query: 430 LARRVDVALYTLDEFYYRVK-PEPALFFGYGAIESLDIETALGRVKTILE 478 A + + L +Y + L GY ++ + +I A ++ +++ Sbjct: 463 QALAAGIVVRPLSRYYMHARGARRGLLLGYASVPNDEIARAFDKLAAVIK 512 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 157 bits (397), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 107/358 (29%), Positives = 170/358 (47%), Gaps = 6/358 (1%) Query: 124 DFMGGIPVRRQFPQEEWRQCVLYGLRQISESCGFYAETEGLPALREAIARHVSFSRGVQC 183 F GG+P FP E + L Q + Y T+G LRE IA +S + G Q Sbjct: 39 SFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLS-TNGAQI 97 Query: 184 TAADVLVTNGAQQALDLIARVLVEPGSVVAVEDPGYPPARMLFSAQGARVESVPVDSEGM 243 +A VL+ +G+QQ LDL+ +VL++ GS V VE P Y A F+ GA+ ESVP D G+ Sbjct: 98 SAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGL 157 Query: 244 R---VDLIPDGTRLIYATPAHQFPLGMPMSPARRAALLARARELRAIVIEDDYDSEFRYE 300 + ++ I G R++Y+ P Q P G + RR L+ L +IEDD Y+ Sbjct: 158 QPETIEAIAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQ 217 Query: 301 GRPMDSLQSMDQDGLVAFVGTFSKSMNPELRVGYVIAPPSILRAMTVVKGLSDWHTPTMT 360 P+ + SM+ G++ ++G+FSK + P +R+GYV+AP ++ M K +D HT +T Sbjct: 218 NAPLPKMLSMNPSGVI-YMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLT 276 Query: 361 QWAMARFIDEGYLQKHIRRCHGIYVARREKLHAALNGTLKPWMCAVPTTAGFHLAARMTA 420 Q + I +G+L +H+ +Y + + + AL G + + Sbjct: 277 QMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPE 336 Query: 421 EVDMTQLLRLA-RRVDVALYTLDEFYYRVKPEPALFFGYGAIESLDIETALGRVKTIL 477 +D LL A + VA FY V + L + + I + R+ ++ Sbjct: 337 HIDAGALLNEAVEQEKVAFVPGAPFYANVAQKNTLRLSFVTVPPEQIRAGVERLGKLI 394 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 119 bits (298), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 131/493 (26%), Positives = 210/493 (42%), Gaps = 43/493 (8%) Query: 13 LAGQVYRQLRDAIQSGRLAPGEQVPPSRLLAIQLGLSRKTVSEAYSRLTLDKLLVGRTGS 72 L Q QL +I+ G L PGE++ R+ + Q +S TV AY L ++ + S Sbjct: 6 LYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQS 65 Query: 73 GTFV----NAPPEP-------KSKPKRFESGDLASGKLIAHWL-----DQSFPLLMRHVG 116 G FV APP+P + P ES ++ +L+ L D + PL + Sbjct: 66 GYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYPN 125 Query: 117 PETRSQYDFMGGIPVRRQFPQEEWRQCVLYGLRQISESCGFYAETEGLPALREAIARHVS 176 P FP Q R S+S F G P L IAR Sbjct: 126 PAL---------------FPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRY- 169 Query: 177 FSRGVQCTAADVLVTNGAQQALDLIARVLVEPGSVVAVEDPGYPPARMLFSAQGARVESV 236 G++ ++++T GA +A++L + + PG +AVE P + G R + Sbjct: 170 LENGLKVDPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEI 229 Query: 237 PVDSE-GMRVDLIPD--GTRLIYAT---PAHQFPLGMPMSPARRAALLARARELRAIVIE 290 P D + G+ V + + T+ I A P Q PLG M + + L+ A + + VIE Sbjct: 230 PTDPQRGIDVGALEERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIE 289 Query: 291 DDYDSEFRYEGRPMDSLQSMDQDGLVAFVGTFSKSMNPELRVGYVIAPPSILRA-MTVVK 349 + SE Y SL++ D+DGLV +FSKS+ R+G+ + P RA + +K Sbjct: 290 NAVYSELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAM--PGRYRAQVEKLK 347 Query: 350 GLSDWHTPTMTQWAMARFIDEGYLQKHIRRCHGIYVARREKL-HAALNGTLKPWMCAVPT 408 L+ TPT Q A+A ++ +G ++H+RR + +R+ + H L + P Sbjct: 348 FLNTLATPTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEP- 406 Query: 409 TAGFHLAARMTAEVDMTQLLRLARRVDVALYTLDEFYYRVKPEPALFFGYGAIESLDIET 468 G+ L + VD +L R + + + + F + + Y S + E Sbjct: 407 QGGYVLWVELPQGVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQ 466 Query: 469 ALGRVKTILEELG 481 AL V ++EEL Sbjct: 467 ALKLVGKLVEELA 479 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 118 bits (296), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 126/487 (25%), Positives = 202/487 (41%), Gaps = 65/487 (13%) Query: 1 MELHIVIEGSKDLAGQVYRQLRDAIQSGRLAPGEQVPPSRLLAIQLGLSRKTVSEAYSRL 60 ++L + + S L QV L I++G L GE++P R A + TV EAY +L Sbjct: 9 LQLDLKRKTSARLVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQL 68 Query: 61 TLDKLLVGRTGSGTFVNA------------PPEPKSKPKRFESGDLASGKLIAHWLDQSF 108 +L R G+G FV A PPEP S A D+ Sbjct: 69 VARGMLQARRGAGFFVAARAGQSGQHAVFVPPEPVIDSAWLLSEMFA---------DERV 119 Query: 109 PLLMRHVGPETRSQYDFMGGIPVRRQ-FPQEEWRQCVLYGLRQISESCGFYAETEGLPAL 167 P+ ++ ++ G + + Q E R G +Q+ Y G L Sbjct: 120 PI---------KAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVG-----YGHPYGYAPL 165 Query: 168 REAIAR---HVSFSRGVQCTAADVLVTNGAQQALDLIARVLVEPGSVVAVEDPGYPPARM 224 R+ I + H S G++ VL T+GA QALDL+ R + +PG V ++DPGY Sbjct: 166 RQLITQFLGHWSLELGIE----QVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIA 221 Query: 225 LFSAQGARVESVPVDSEGMRVDLIPDGTR-----LIYATPAHQFPLGMPMSPARRAALLA 279 + G V VP G+ D++ R + + T Q P G +PA +L Sbjct: 222 MLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQ 281 Query: 280 RARELRAIVIEDDYDSEFRYEGRPMDSLQSMDQDGLVAFVGTFSKSMNPELRVGYVIAPP 339 A V+EDD E PM L ++D V +VG++SK++ P LRVGY+ Sbjct: 282 AAERHGFWVVEDDIFRELGQATDPM--LAALDGLQRVIYVGSYSKTIAPSLRVGYIACQR 339 Query: 340 SILRAMTVVKGLSDWHTPTMTQWAMARFIDEGYLQKHIRRCHGIYVARREKLHAALNGT- 398 + R + K + + + + + EG+ ++H++ + ++ + L+A L+ Sbjct: 340 ELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEVG 399 Query: 399 LKPW------MCAVPTTAGFHLAARMTAEVDMTQLLRLARRVDVALYTLDEFYYRVKPEP 452 L P+ M + T G L+AR A+ AR+ + L D F+ + Sbjct: 400 LTPFTAARGGMFSWATIEGCELSAREIAD--------RARQKGIWLAPGDFFHLSAPHQT 451 Query: 453 ALFFGYG 459 + F G Sbjct: 452 SFRFNVG 458 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 116 bits (291), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 107/411 (26%), Positives = 170/411 (41%), Gaps = 34/411 (8%) Query: 8 EGSKDLAGQVYRQLRDAIQSGRLAPGEQVPPSRLLAIQLGLSRKTVSEAYSRLTLDKLLV 67 E S L + + +R I G APG ++P R +A + G ++ T+ + LT L Sbjct: 3 EASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAE 62 Query: 68 GRTGSGTFVN-APPEPKSKPKRFESGDLASGKLIAHWLDQSFPLLMRHVGPETRSQYDFM 126 R G+G FV APP PK E G+L+ + WL MR Q Sbjct: 63 PRRGAGFFVCVAPPRPKED----EEGNLSRAMDVV-WL-------MREQLKHDPGQLRLG 110 Query: 127 GGIPVRRQFPQEEWRQCV-LYGLRQISESCGF-----YAETEGLPALREAIARHVSFSRG 180 G FP EW V L Q G Y G LR+ + H G Sbjct: 111 DG------FPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLV-HKLAQHG 163 Query: 181 VQCTAADVLVTNGAQQALDLIARVLVEPGSVVAVEDPGYPPARMLFSAQGARVESVPVDS 240 ++ +++T+GA QALD++ R + PG V V++PGY GAR+ +P Sbjct: 164 IEAGTGQIVLTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLP 223 Query: 241 EGMRVDLI------PDGTRLIYATPAHQFPLGMPMSPARRAALLARARELRAIVIEDDYD 294 +G V ++ P L + P SP + +L A +AI++E+D Sbjct: 224 DGPDVAVLERELHRPGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAF 283 Query: 295 SEFRYEGRPMDSLQSMDQDGLVAFVGTFSKSMNPELRVGYVIAPPSILRAMTVVKGLSDW 354 ++F+ P + ++DQ +VG+FSKS++ LRVG++ + + +K L Sbjct: 284 ADFKPATAP--RIATLDQLRRTVYVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHM 341 Query: 355 HTPTMTQWAMARFIDEGYLQKHIRRCHGIYVARREKLHAALNGTLKPWMCA 405 + + + + +G+ +H R E+ A L G CA Sbjct: 342 SSSEYCERTLDVILSDGHFSRHTARLRERLAQATEQARAQLEGLGAELFCA 392 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 0.321 0.137 0.407 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: 1,533,550 Number of extensions: 64655 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 13 Length of query: 482 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 393 Effective length of database: 1,198,455 Effective search space: 470992815 Effective search space used: 470992815 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: 132 (55.5 bits)