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= 0001.1604.p (509 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311074|ref|YP_003775166.1| transcription regulator protein... 924 0.0 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 352 4e-98 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 156 3e-39 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 131 2e-31 gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 130 3e-31 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 924 bits (2387), Expect = 0.0, Method: Compositional matrix adjust. Identities = 442/483 (91%), Positives = 464/483 (96%) Query: 25 PPAAESGRQPLYRRLAEHYQGAIQSGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEE 84 P A ESGRQPLYRRLA+HYQ AIQ+GTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEE Sbjct: 32 PSAPESGRQPLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEE 91 Query: 85 GNWLEARPRSGYFVRQPRRSVIRPVQEPKSLMAIDPEQYAGIHEKVSKYIALRQSGAPRI 144 G WLEARPRSGYFVRQPRRS IRPVQEPKSL+AID Q+ GIHE+VSKYIALRQ+GAP I Sbjct: 92 GGWLEARPRSGYFVRQPRRSAIRPVQEPKSLLAIDAGQFVGIHERVSKYIALRQAGAPHI 151 Query: 145 DLSGMTCAPELYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALHHGMRID 204 DLSGMTCAP+LYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRAL+ GMRID Sbjct: 152 DLSGMTCAPQLYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALNAGMRID 211 Query: 205 HEEVVVTHGCIEALNLALRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGI 264 EEVVVTHGCIEALNLA+RAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGI Sbjct: 212 TEEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGI 271 Query: 265 SVEALELAVRTYGNIKGVVVVPNLQNPLGCIMPDEHKDKLVRLCEELRLPLIEDDAYTEL 324 SVEALELAVRTYGNIK VVVVPNLQNPLGCIMP++HKD+LVRLC++L+LPLIEDDAYTEL Sbjct: 272 SVEALELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTEL 331 Query: 325 ADGSVAPSSLKSRDRSGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRANEE 384 ADGSV PSSLKSRDR+GNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRANEE Sbjct: 332 ADGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRANEE 391 Query: 385 WTQVTAADFIASPGYDRHLRRLRQLLKEQRERMAESIAAYFPEGTRLNLPNGGVGLWVEL 444 WTQVTAADFIASP YDRHLRRLRQ+LK+QRERMAESIAAYFPEGTRLNLPNGGVGLWVEL Sbjct: 392 WTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWVEL 451 Query: 445 PSQVCSQQLFERALSEGVGVSPGAIFSNSNRYGHFLRICCGHPFTRELDQALRRLGSIGH 504 P QVCSQQLFERAL+EGVGVSPGAIFSNS+RYGHF+RICCGHPF RELDQALRRLG + H Sbjct: 452 PVQVCSQQLFERALAEGVGVSPGAIFSNSSRYGHFVRICCGHPFNRELDQALRRLGGLVH 511 Query: 505 SLA 507 LA Sbjct: 512 HLA 514 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 352 bits (903), Expect = 4e-98, Method: Compositional matrix adjust. Identities = 195/486 (40%), Positives = 296/486 (60%), Gaps = 21/486 (4%) Query: 34 PLYRRLAEHYQGAIQSGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGNWLEARPR 93 PLY++ A+ +I+ G L G+R+ SVR +QH+VS++T ++ +E +E++P+ Sbjct: 5 PLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQ 64 Query: 94 SGYFVRQPRRSVIRPVQEPK-SLMAIDPEQYAGIHEK----VSKYI-----ALRQSGAPR 143 SGYFVR+ +P PK +L E + E VS+ + ++Q G Sbjct: 65 SGYFVRE------QPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGT-- 116 Query: 144 IDLSGMTCAPELYAVETLKQAAMRALRERPEL-LTSAMPHNGNATFRQAVARRALHHGMR 202 + L P L+ L Q A R R + + +P RQ +ARR L +G++ Sbjct: 117 VPLGSPYPNPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQ-IARRYLENGLK 175 Query: 203 IDHEEVVVTHGCIEALNLALRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHT 262 +D EE+V+T G EA+NL L+AVA PGDTIAVE+PT++ +L A+E LGM+ALEIPT P Sbjct: 176 VDPEEIVITVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQR 235 Query: 263 GISVEALELAVRTYGNIKGVVVVPNLQNPLGCIMPDEHKDKLVRLCEELRLPLIEDDAYT 322 GI V ALE ++T I +V+PN QNPLG MPD K++LVRL E+ ++P+IE+ Y+ Sbjct: 236 GIDVGALEERMKTQA-IAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYS 294 Query: 323 ELADGSVAPSSLKSRDRSGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRAN 382 EL G+ PSSLK+ DR G V++C+S +K L R+GW GR+ +V+ LKF +T A Sbjct: 295 ELYYGNAHPSSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTLAT 354 Query: 383 EEWTQVTAADFIASPGYDRHLRRLRQLLKEQRERMAESIAAYFPEGTRLNLPNGGVGLWV 442 Q A+++ GY+RHLRR+R+ +QR+ M + +FP GT+++ P GG LWV Sbjct: 355 PTAPQRAIAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWV 414 Query: 443 ELPSQVCSQQLFERALSEGVGVSPGAIFSNSNRYGHFLRICCGHPFTRELDQALRRLGSI 502 ELP V + +L+ R+L+ G+ V+PG IF+ +NRY HF+R+ + +++E +QAL+ +G + Sbjct: 415 ELPQGVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLNYSYAWSKETEQALKLVGKL 474 Query: 503 GHSLAG 508 LAG Sbjct: 475 VEELAG 480 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 156 bits (395), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 110/362 (30%), Positives = 175/362 (48%), Gaps = 13/362 (3%) Query: 146 LSGMTCAPELYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVARRALHHGMRIDH 205 +G +P + VE +K A R L ++ ++ P +G R+ +A +G +I Sbjct: 40 FAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLSTNGAQISA 99 Query: 206 EEVVVTHGCIEALNLALRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGIS 265 E+V++ G + L+L + + G + VE+P+Y G LQA G K +P S G+ Sbjct: 100 EQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVP-SDEFGLQ 158 Query: 266 VEALELAVRTYGNIKGVVVVPNLQNPLGCIMPDEHKDKLVRLCEELRLPLIEDDAYTELA 325 E +E G + + +PN QNP G +P E + KLV C L LPLIEDD Y L+ Sbjct: 159 PETIEAIA---GGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALS 215 Query: 326 DGSVAPSSLKSRDRSGNVIYCASLNKVLAPGMRLGWMNGGR----WHERVKMLKFTHTRA 381 + + S + SG VIY S +KVL PG+RLG++ R E+ K HT Sbjct: 216 YQNAPLPKMLSMNPSG-VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHT-- 272 Query: 382 NEEWTQVTAADFIASPGYDRHLRRLRQLLKEQRERMAESIAAYFPEGTRLNLPNGGVGLW 441 + TQ+ + I D+H+ +R+L +Q + M +++ YFP + P GG+ +W Sbjct: 273 -AQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIW 331 Query: 442 VELPSQVCSQQLFERAL-SEGVGVSPGAIFSNSNRYGHFLRICCGHPFTRELDQALRRLG 500 V LP + + L A+ E V PGA F + + LR+ ++ + RLG Sbjct: 332 VTLPEHIDAGALLNEAVEQEKVAFVPGAPFYANVAQKNTLRLSFVTVPPEQIRAGVERLG 391 Query: 501 SI 502 + Sbjct: 392 KL 393 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 131 bits (329), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 119/470 (25%), Positives = 206/470 (43%), Gaps = 23/470 (4%) Query: 35 LYRRLAEHYQGAIQSGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGNWLEARPRS 94 L ++A G I++G L +G+R+PSVR + H + ST ++ + L+AR + Sbjct: 21 LVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGA 80 Query: 95 GYFVRQPRRSVIRPVQEPKSLMAIDPEQYAGIHEKVSKYIALRQSGAPRIDL-SGMTCAP 153 G+FV R Q + + + PE S ++ R+ + +G P Sbjct: 81 GFFV------AARAGQSGQHAVFVPPEPVID-----SAWLLSEMFADERVPIKAGCGWLP 129 Query: 154 -ELYAVETLKQAAMRALRERPELLTSAMPH-NGNATFRQAVARRALHHGMRIDHEEVVVT 211 + E L QA R +R P H G A RQ + + H + + E+V+ T Sbjct: 130 GKWLNDEGLHQAERRIIRS-PGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTT 188 Query: 212 HGCIEALNLALRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGISVEALEL 271 HG +AL+L +R + PGDT+ ++ P Y L+ L G+ + +P +P G+ + LE Sbjct: 189 HGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTP-GGVDTDVLET 247 Query: 272 AVRTYGNIKGVVVVPNLQNPLGCIMPDEHKDKLVRLCEELRLPLIEDDAYTELADGSVAP 331 RT+ + K LQNP G ++++ E ++EDD + EL G Sbjct: 248 LARTH-HPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFREL--GQATD 304 Query: 332 SSLKSRDRSGNVIYCASLNKVLAPGMRLGWMNGGRWHER-VKMLKFTHTRANEEWTQVTA 390 L + D VIY S +K +AP +R+G++ R R + K T N E + Sbjct: 305 PMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLV 364 Query: 391 ADFIASPGYDRHLRRLRQLLKEQRERMAESIAAYFPEGTRLNLPNGGVGLWVELPS-QVC 449 + + + RH++ L L + + ++ T GG+ W + ++ Sbjct: 365 HNVLTEGHHRRHVQTLNATLLSAQATLNAKLSEV--GLTPFTAARGGMFSWATIEGCELS 422 Query: 450 SQQLFERALSEGVGVSPGAIFSNSNRYGHFLRICCGHPFTRELDQALRRL 499 ++++ +RA +G+ ++PG F S + R G+ EL LR L Sbjct: 423 AREIADRARQKGIWLAPGDFFHLSAPHQTSFRFNVGYADVPELFDFLRGL 472 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 130 bits (326), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 120/461 (26%), Positives = 214/461 (46%), Gaps = 34/461 (7%) Query: 19 AGAASPPPAAESGRQPLYRRLAEHYQGAIQSGTLVAGDRMPSVRDLMRQHQVSLSTALQT 78 +GAA P P R P+ R++ + + AI + TL AG ++PS RDL + S +T Sbjct: 34 SGAAKPAP-----RTPVNRQIYQLIREAILAHTLPAGMQLPSSRDLALELGSSRNTVTYA 88 Query: 79 LRHMEEGNWLEARPRSGYFVRQPRRSVI-RPVQEPKSLMAIDPEQYAGIHEKVSKY---- 133 + +LE+RP +G FV I V+ P+ L DP + + + + Sbjct: 89 YEQLLAEGYLESRPGAGTFVADTAPDQIPEAVERPEPL--TDPSGKSELSARGAMLTRQA 146 Query: 134 -IALRQSGAPRIDLSGMTCAPELYAV-ETLKQAAMRALRERPELLTSAMPHNGNATFRQA 191 + RQ GA + +TC P Y + L+ R R +LLT P G A R+ Sbjct: 147 GVGERQWGAFMPGVPDVTCVP--YKIWGRLQNKHWR--RSNADLLTYG-PGAGYAGLREQ 201 Query: 192 VARRA-LHHGMRIDHEEVVVTHGCIEALNLALRAVAGPGDTIAVESPTYFGLLQALENLG 250 +A + + +V++T G ++L++ ++ + GD+ VE P Y+G L +LG Sbjct: 202 IAEYLRVARSVNCTPSQVLITTGIHQSLDIVVKLLGEHGDSAWVEDPCYWGTRSVLNSLG 261 Query: 251 MKALEIPTSPHTGISVEALELAVRTYGNIK----GVVVVPNLQNPLGCIMPDEHKDKLVR 306 ++++ I + E + + + N++ + P+ Q PLG +M + L+ Sbjct: 262 IQSVPI------AVDQEGMRMRL---ANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLE 312 Query: 307 LCEELRLPLIEDDAYTELADGSVAPSSLKSRDRSGNVIYCASLNKVLAPGMRLGWMNGGR 366 ++ +IEDD +E G +SL+ D V+Y + +K++ PG+R+G++ Sbjct: 313 YAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPE 372 Query: 367 WHERVKMLKFTHT-RANEEWTQVTAADFIASPGYDRHLRRLRQLLKEQRERMAESIAAYF 425 R R + + Q T ADF+A + H+R++R L E+ + + +SI +F Sbjct: 373 SLARAFSTGIAELYRNGQVFLQATLADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHF 432 Query: 426 PEGTRLNLPNGGVGLWVELPSQVCSQQLFERALSEGVGVSP 466 E + G+ L + LP + + E+AL+ G+ V P Sbjct: 433 GEKMTITGGEAGLHLVLGLPQECDDVLICEQALAAGIVVRP 473 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 0.134 0.402 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: 1,563,256 Number of extensions: 62997 Number of successful extensions: 271 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 255 Number of HSP's successfully gapped: 11 Length of query: 509 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 420 Effective length of database: 1,198,455 Effective search space: 503351100 Effective search space used: 503351100 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: 133 (55.8 bits)