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= 0002.0320.p (466 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... 447 e-127 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 123 3e-29 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 113 3e-26 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 99 1e-21 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 92 1e-19 >gi|300311757|ref|YP_003775849.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 447 bits (1150), Expect = e-127, Method: Compositional matrix adjust. Identities = 229/434 (52%), Positives = 297/434 (68%), Gaps = 10/434 (2%) Query: 34 LQAAVADGSLKPGDRLLPQRQLAAQLDVDLTTITRAYDEARRRNLLEGRGARGTYVAAPK 93 ++ A++D L+PGDRL PQRQLA L VDLTT+TRAY EARRR+LLE RG+ GT+VAAPK Sbjct: 1 MEQAISDERLRPGDRLPPQRQLAEYLQVDLTTVTRAYGEARRRHLLEARGSAGTFVAAPK 60 Query: 94 VELISILDLSMNTPPPPEGVDFDDMLKQGLSQVLMRADSELLMTYHLTGGSDSNRKAGAK 153 V+L ++DLSMN PPPP G+D +D+L+QG+SQVL+ +D++LLMTYHL GGS ++R AGA Sbjct: 61 VDLSQLIDLSMNIPPPPAGIDLNDLLRQGMSQVLIHSDADLLMTYHLGGGSSADRAAGAM 120 Query: 154 WLAPMFGHLDSGQVVVCPGAQAAIAALILALTEPGDVILAEPMSYPGLRAAATQLGRHVI 213 W+ M G +D +V+ CPGAQ+A+AAL+L+ T PG+VILAEP++YPGL A LGR V+ Sbjct: 121 WMQAMLGPVDEARVLACPGAQSALAALVLSQTRPGEVILAEPLAYPGLLTVAAHLGRRVM 180 Query: 214 AVEADEHGMVPERFEEACRQHKPGLVYLNPTLQNPTAVTMPERRRKEFASIAKRCNVRIV 273 AV+ D+ GM P+ R+H+ LVYLNPTLQNPT TMP RR E A++A R ++RI+ Sbjct: 181 AVDVDDEGMRPDLLMTMARRHQARLVYLNPTLQNPTTRTMPATRRAEIAALATRLDLRII 240 Query: 274 EDDPYWLLADGPPPPIARFAPEQVYYISTLSKCLTPGLRIAFVLIRDPHERERFLAALRS 333 EDDPYW A P P+A +AP V+Y+STLSKCL PGLR A+VL+ + +E L ALRS Sbjct: 241 EDDPYWRFAAHAPRPLAHYAPGHVFYVSTLSKCLLPGLRTAYVLMPERQAQEEVLGALRS 300 Query: 334 FALMVAPLTAALATQWILDGSADGLMEGVRNEARLRHRMARDILAGRYSGAGDGLHVWLE 393 F LM PL AL+TQWI DG+A L+EG+R+EA RH +A L G AG G+H+W Sbjct: 301 FVLMSTPLMTALSTQWIHDGTAATLLEGIRSEAWARHELALRTLGGAGLSAGGGIHLWKA 360 Query: 394 LPAYWNSSQLAHAADSEGIAVTPAEAFAT----------GNGSVNAIRISLGSIKDRGRL 443 LPA+W + A G+ V +FA G IRISLG + R L Sbjct: 361 LPAHWQGQEFVLKARQAGLNVVSQSSFAVPPEGREPGADSGGQGACIRISLGRSRSRFEL 420 Query: 444 LAGLQRLSHLLARR 457 + L+RL L RR Sbjct: 421 VNALRRLMELAQRR 434 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 123 bits (309), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 133/477 (27%), Positives = 202/477 (42%), Gaps = 54/477 (11%) Query: 25 PRFLQIADALQAAVADGSLKPGDRLLPQRQLAAQLDVDLTTITRAYDEARRRNLLEGRGA 84 P + ++AD Q+A+ G+L GDR+ R L Q V L+T + LE R Sbjct: 41 PLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWLEARPR 100 Query: 85 RGTYVAAPK----------VELISI-------------------------LDLS-MNTPP 108 G +V P+ L++I +DLS M P Sbjct: 101 SGYFVRQPRRSAIRPVQEPKSLLAIDAGQFVGIHERVSKYIALRQAGAPHIDLSGMTCAP 160 Query: 109 PPEGVDFDDMLKQGLSQVLMRADSELLMTYHLTGGSDSNRKAGAKWLAPMFGHLDSGQVV 168 V+ LKQ + L R ELL + G+ + R+A A+ +D+ +VV Sbjct: 161 QLYAVE---TLKQAAMRAL-RERPELLTSAMPHNGNATFRQAVARRALNAGMRIDTEEVV 216 Query: 169 VCPGAQAAIAALILALTEPGDVILAEPMSYPGLRAAATQLGRHVIAVEADEH-GMVPERF 227 V G A+ + A+ PGD I E +Y GL A LG + + H G+ E Sbjct: 217 VTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGISVEAL 276 Query: 228 EEACRQH-KPGLVYLNPTLQNPTAVTMPERRRKEFASIAKRCNVRIVEDDPYWLLADGPP 286 E A R + V + P LQNP MPE + + + + + ++EDD Y LADG Sbjct: 277 ELAVRTYGNIKAVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTELADGSV 336 Query: 287 PP---IARFAPEQVYYISTLSKCLTPGLRIAFVLIRDPHERERFLAALRSFALMVAPLTA 343 P +R V Y ++L+K L PG+R+ ++ HER + L + A T Sbjct: 337 TPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLKFTHTRA--NEEWTQ 394 Query: 344 ALATQWILDGSADGLMEGVRNEAR-LRHRMARDILA-----GRYSGAGDGLHVWLELPAY 397 A +I + D + +R + R RMA I A R + G+ +W+ELP Sbjct: 395 VTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWVELPVQ 454 Query: 398 WNSSQLAHAADSEGIAVTPAEAFATGNGSVNAIRISLGSIKDRGRLLAGLQRLSHLL 454 S QL A +EG+ V+P F+ + + +RI G +R L L+RL L+ Sbjct: 455 VCSQQLFERALAEGVGVSPGAIFSNSSRYGHFVRICCGHPFNR-ELDQALRRLGGLV 510 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 113 bits (283), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 93/350 (26%), Positives = 160/350 (45%), Gaps = 14/350 (4%) Query: 117 DMLKQGLSQVLMRADSELLMTYHLTGGSDSNRKAGAKWLAPMFGHLDSGQVVVCPGAQAA 176 + +K +VL + ++ + Y T G R+ A L+ + + QV++ G+Q Sbjct: 53 EHMKTAFDRVLSQ-QGKMALQYGPTDGYLPLREWIAASLSTNGAQISAEQVLMVSGSQQG 111 Query: 177 IAALILALTEPGDVILAEPMSYPGLRAAATQLGRHVIAVEADEHGMVPERFEEACRQHKP 236 + L L + G +L E SY G A G +V +DE G+ PE E + Sbjct: 112 LDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGLQPETIEAIAGGAR- 170 Query: 237 GLVYLNPTLQNPTAVTMPERRRKEFASIAKRCNVRIVEDDPYWLLA--DGPPPPIARFAP 294 ++Y P QNPT T+P RR + R + ++EDDPY L+ + P P + P Sbjct: 171 -MLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQNAPLPKMLSMNP 229 Query: 295 EQVYYISTLSKCLTPGLRIAFVLIRDPHERERFLAALRSFALMVAPLTAALATQWILDGS 354 V Y+ + SK LTPG+R+ +V+ P + A ++ L A LT + + I DG Sbjct: 230 SGVIYMGSFSKVLTPGIRLGYVVAPRPLIL-KMEQAKQATDLHTAQLTQMVVYEAIKDGF 288 Query: 355 ADGLMEGVRNEARLRHRMARDIL------AGRYSGAGDGLHVWLELPAYWNSSQLAH-AA 407 D + +R + + D L + +S G+ +W+ LP + ++ L + A Sbjct: 289 LDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPEHIDAGALLNEAV 348 Query: 408 DSEGIAVTPAEAFATGNGSVNAIRISLGSIKDRGRLLAGLQRLSHLLARR 457 + E +A P F N +R+S ++ ++ AG++RL L+A + Sbjct: 349 EQEKVAFVPGAPFYANVAQKNTLRLSFVTVPPE-QIRAGVERLGKLIASK 397 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 98.6 bits (244), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 110/457 (24%), Positives = 189/457 (41%), Gaps = 54/457 (11%) Query: 25 PRFLQIADALQAAVADGSLKPGDRLLPQRQLAAQLDVDLTTITRAYDEARRRNLLEGRGA 84 P + Q AD L A++ DG L+PG+R+ R + Q V +TT+ RAY+ R ++E + Sbjct: 5 PLYKQFADQLAASIRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQ 64 Query: 85 RGTYV-----AAPKVELISI-------------LDLS-----------------MNTPPP 109 G +V A PK L + +D+S + +P P Sbjct: 65 SGYFVREQPEAPPKPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYP 124 Query: 110 PEGVDFDDMLKQGLSQVLMRADSELLMTYHLTGGSDSNRKAGAKWLAPMFGHLDSGQVVV 169 + L Q ++ A + G + R+ ++L +D ++V+ Sbjct: 125 NPALFPSHRLAQYAGRIARHASQSSVFDDLPPGHPELLRQIARRYLENGL-KVDPEEIVI 183 Query: 170 CPGAQAAIAALILALTEPGDVILAEPMSYPGLRAAATQLGRHVIAVEAD-EHGMVPERFE 228 GA AI + A+ PGD I E ++ + A +LG + + D + G+ E Sbjct: 184 TVGATEAINLCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGALE 243 Query: 229 EACRQHKPGLVYLNPTLQNPTAVTMPERRRKEFASIAKRCNVRIVEDDPYWLLADGPPPP 288 E + + P QNP MP+ ++ +A++ + ++E+ Y L G P Sbjct: 244 ERMKTQAIAACMVMPNFQNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNAHP 303 Query: 289 IARFAPEQ---VYYISTLSKCLTPGLRIAFVL---IRDPHERERFLAALRSFALMVAPLT 342 + ++ V + S+ SK LT RI + + R E+ +FL L A AP Sbjct: 304 SSLKNYDRDGLVLHCSSFSKSLTSAYRIGWAMPGRYRAQVEKLKFLNTL---ATPTAPQR 360 Query: 343 AALATQWILDGSADGLMEGVR-----NEARLRHRMARDILAGRYSGAGDGLHV-WLELPA 396 A +++ G + + VR +RH + R AG G +V W+ELP Sbjct: 361 A--IAEYLTQGGYERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQ 418 Query: 397 YWNSSQLAHAADSEGIAVTPAEAFATGNGSVNAIRIS 433 ++ +L + + GI V P FA N + IR++ Sbjct: 419 GVDAMELYRRSLALGITVAPGRIFAATNRYSHFIRLN 455 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/313 (25%), Positives = 131/313 (41%), Gaps = 26/313 (8%) Query: 29 QIADALQAAVADGSLKPGDRLLPQRQLAAQLDVDLTTITRAYDEARRRNLLEGRGARGTY 88 Q+A+ L + G L+ G+RL RQ A D+ +T+ AY++ R +L+ R G + Sbjct: 24 QVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGAGFF 83 Query: 89 VAA---------------PKVELISILD--LSMNTPPPPEGVDF-------DDMLKQGLS 124 VAA P ++ +L + P G + D+ L Q Sbjct: 84 VAARAGQSGQHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQAER 143 Query: 125 QVLMRADSELLMTYHLTGGSDSNRKAGAKWLAPMFGHLDSGQVVVCPGAQAAIAALILAL 184 +++ R+ + Y G R+ ++L L QV+ GA A+ +I + Sbjct: 144 RII-RSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQALDLVIRTM 202 Query: 185 TEPGDVILAEPMSYPGLRAAATQLGRHVIAVEADEHGMVPERFEEACRQHKPGLVYLNPT 244 T+PGD +L + Y L A G +VI V G+ + E R H P + + Sbjct: 203 TQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTTSV 262 Query: 245 LQNPTAVTMPERRRKEFASIAKRCNVRIVEDDPYWLLADGPPPPIARF-APEQVYYISTL 303 LQNPT + A+R +VEDD + L P +A ++V Y+ + Sbjct: 263 LQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPMLAALDGLQRVIYVGSY 322 Query: 304 SKCLTPGLRIAFV 316 SK + P LR+ ++ Sbjct: 323 SKTIAPSLRVGYI 335 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 0.320 0.136 0.403 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: 1,555,931 Number of extensions: 66326 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 232 Number of HSP's successfully gapped: 9 Length of query: 466 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 377 Effective length of database: 1,198,455 Effective search space: 451817535 Effective search space used: 451817535 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)