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= 0001.2170.p (436 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... 693 0.0 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 102 8e-23 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 96 7e-21 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 78 1e-15 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 78 2e-15 >gi|300311757|ref|YP_003775849.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 693 bits (1789), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/441 (81%), Positives = 388/441 (87%), Gaps = 5/441 (1%) Query: 1 MEQAISDERLKPGDRLPPQRLLADHLGVDLTTVTRAYTEARRRHLLEARGSAGTFVAAPK 60 MEQAISDERL+PGDRLPPQR LA++L VDLTTVTRAY EARRRHLLEARGSAGTFVAAPK Sbjct: 1 MEQAISDERLRPGDRLPPQRQLAEYLQVDLTTVTRAYGEARRRHLLEARGSAGTFVAAPK 60 Query: 61 VDLSQVIDLSMNIPPPPAGVDLDDLLRQGVSQILIHSDADLLMTYHLGGGSSADRAAGAM 120 VDLSQ+IDLSMNIPPPPAG+DL+DLLRQG+SQ+LIHSDADLLMTYHLGGGSSADRAAGAM Sbjct: 61 VDLSQLIDLSMNIPPPPAGIDLNDLLRQGMSQVLIHSDADLLMTYHLGGGSSADRAAGAM 120 Query: 121 WLQELLGHIDERRVLVCPGAQAALAALLLSQTQPGEVILAEPLTYPGLLTAAAQLGRRVV 180 W+Q +LG +DE RVL CPGAQ+ALAAL+LSQT+PGEVILAEPL YPGLLT AA LGRRV+ Sbjct: 121 WMQAMLGPVDEARVLACPGAQSALAALVLSQTRPGEVILAEPLAYPGLLTVAAHLGRRVM 180 Query: 181 AVGVDGEGMRPDLLQTMARKHGARLVYLNPTLQNPTTHTMPAARRAEIAAVVTRLNLRVI 240 AV VD EGMRPDLL TMAR+H ARLVYLNPTLQNPTT TMPA RRAEIAA+ TRL+LR+I Sbjct: 181 AVDVDDEGMRPDLLMTMARRHQARLVYLNPTLQNPTTRTMPATRRAEIAALATRLDLRII 240 Query: 241 EDDPYWRFAAHAPKPLAHYAPQHVFYVSTLSKCLLPGLRTAYVVTPEGVGQEELLGALRS 300 EDDPYWRFAAHAP+PLAHYAP HVFYVSTLSKCLLPGLRTAYV+ PE QEE+LGALRS Sbjct: 241 EDDPYWRFAAHAPRPLAHYAPGHVFYVSTLSKCLLPGLRTAYVLMPERQAQEEVLGALRS 300 Query: 301 FVLMSTPLMTALSTQWIHDGTADKLLEGIRHEARTRQELALRTLGDADLAGAGGIHLWKA 360 FVLMSTPLMTALSTQWIHDGTA LLEGIR EA R ELALRTLG A L+ GGIHLWKA Sbjct: 301 FVLMSTPLMTALSTQWIHDGTAATLLEGIRSEAWARHELALRTLGGAGLSAGGGIHLWKA 360 Query: 361 LPGHWNGPDFVLKARQAGLNLVAHDSFQVGQT--DPRQD---RTAYIRISLGRSRSGFEL 415 LP HW G +FVLKARQAGLN+V+ SF V +P D + A IRISLGRSRS FEL Sbjct: 361 LPAHWQGQEFVLKARQAGLNVVSQSSFAVPPEGREPGADSGGQGACIRISLGRSRSRFEL 420 Query: 416 VNALRRLMELAHRRSVREVVV 436 VNALRRLMELA RRS REVVV Sbjct: 421 VNALRRLMELAQRRSPREVVV 441 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 102 bits (253), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 86/301 (28%), Positives = 136/301 (45%), Gaps = 12/301 (3%) Query: 128 HIDERRVLVCPGAQAALAALLLSQTQPGEVILAEPLTYPGLLTAAAQLGRRVVAVGVDGE 187 I +VL+ G+Q L L G +L E +Y G L A A G + +V D Sbjct: 96 QISAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEF 155 Query: 188 GMRPDLLQTMARKHGARLVYLNPTLQNPTTHTMPAARRAEIAAVVTRLNLRVIEDDPYWR 247 G++P+ ++ +A GAR++Y P QNPT T+P RR ++ RL L +IEDDPY Sbjct: 156 GLQPETIEAIA--GGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGA 213 Query: 248 FA-AHAPKP-LAHYAPQHVFYVSTLSKCLLPGLRTAYVVTPEGVGQEELLGALRSFVLMS 305 + +AP P + P V Y+ + SK L PG+R YVV P + ++ A ++ L + Sbjct: 214 LSYQNAPLPKMLSMNPSGVIYMGSFSKVLTPGIRLGYVVAPRPL-ILKMEQAKQATDLHT 272 Query: 306 TPLMTALSTQWIHDGTADKLLEGIRHEARTRQELALRTLGDADLAGA------GGIHLWK 359 L + + I DG D+ + IR + + L L A GG+ +W Sbjct: 273 AQLTQMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWV 332 Query: 360 ALPGHWNGPDFVLKA-RQAGLNLVAHDSFQVGQTDPRQDRTAYIRISLGRSRSGFELVNA 418 LP H + + +A Q + V F R +++ + + R+G E + Sbjct: 333 TLPEHIDAGALLNEAVEQEKVAFVPGAPFYANVAQKNTLRLSFVTVPPEQIRAGVERLGK 392 Query: 419 L 419 L Sbjct: 393 L 393 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 114/430 (26%), Positives = 174/430 (40%), Gaps = 62/430 (14%) Query: 5 ISDERLKPGDRLPPQRLLADHLGVDLTTVTRAYTEARRRHLLEARGSAGTFVAA------ 58 I L+ G+RLP R A H + +TV AY + R +L+AR AG FVAA Sbjct: 33 IETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGAGFFVAARAGQSG 92 Query: 59 ---------PKVDLSQVID--LSMNIPPPPAGVDL-------DDLLRQGVSQILIHSDAD 100 P +D + ++ + P AG D+ L Q +I+ A Sbjct: 93 QHAVFVPPEPVIDSAWLLSEMFADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQ 152 Query: 101 LLMTYHLGGGSSADRAAGAMWLQELLGH----IDERRVLVCPGAQAALAALLLSQTQPGE 156 +G G A + + LGH + +VL GA AL ++ + TQPG+ Sbjct: 153 -----QVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHGATQALDLVIRTMTQPGD 207 Query: 157 VILAEPLTYPGLLTAAAQLGRRVVAVGVDGEGMRPDLLQTMARKHGARLVYLNPTLQNPT 216 +L + Y L+ G V+ V G+ D+L+T+AR H ++ + LQNPT Sbjct: 208 TVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPT 267 Query: 217 THTMPAARRAEIAAVVTRLNLRVIEDDPYWRFAAHAPKPL--AHYAPQHVFYVSTLSKCL 274 + A + R V+EDD + R A P+ A Q V YV + SK + Sbjct: 268 GTSYTPACAMRVLQAAERHGFWVVEDDIF-RELGQATDPMLAALDGLQRVIYVGSYSKTI 326 Query: 275 LPGLRTAYVVTPEGVGQEELLGALRSFVLMSTPLMTALSTQWIHDGTADKLLEGIRHEAR 334 P LR Y+ Q EL + ++ T + ++ + +H + L EG H R Sbjct: 327 APSLRVGYIAC-----QRELARQIVHTKMVLTLTNSEINERLVH----NVLTEG--HHRR 375 Query: 335 TRQELALRTLG-----DADL---------AGAGGIHLWKALPG-HWNGPDFVLKARQAGL 379 Q L L +A L A GG+ W + G + + +ARQ G+ Sbjct: 376 HVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCELSAREIADRARQKGI 435 Query: 380 NLVAHDSFQV 389 L D F + Sbjct: 436 WLAPGDFFHL 445 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 122/482 (25%), Positives = 183/482 (37%), Gaps = 77/482 (15%) Query: 2 EQAISDERLKPGDRLPPQRLLADHLGVDLTTVTRAYTEARRRHLLEARGSAGTFVAAPK- 60 + AI L GDR+P R L V L+T + LEAR +G FV P+ Sbjct: 51 QSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWLEARPRSGYFVRQPRR 110 Query: 61 --------------VDLSQVIDL----SMNIPPPPAG---VDLDDL-----------LRQ 88 +D Q + + S I AG +DL + L+Q Sbjct: 111 SAIRPVQEPKSLLAIDAGQFVGIHERVSKYIALRQAGAPHIDLSGMTCAPQLYAVETLKQ 170 Query: 89 GVSQILIHSDADLLMTYHLGGGSSADRAAGAMWLQELLGHIDERRVLVCPGAQAALAALL 148 + L +LL + G++ R A A ID V+V G AL + Sbjct: 171 AAMRAL-RERPELLTSAMPHNGNATFRQAVARRALNAGMRIDTEEVVVTHGCIEALNLAM 229 Query: 149 LSQTQPGEVILAEPLTYPGLLTAAAQLGRRVVAVGVDGE-GMRPDLLQTMARKHGA-RLV 206 + PG+ I E TY GLL A LG + + + G+ + L+ R +G + V Sbjct: 230 RAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTSPHTGISVEALELAVRTYGNIKAV 289 Query: 207 YLNPTLQNPTTHTMPAARRAEIAAVVTRLNLRVIEDDPYWRFAAHAPKPLAHYAPQ---H 263 + P LQNP MP + ++ + +L L +IEDD Y A + P + + + Sbjct: 290 VVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPLIEDDAYTELADGSVTPSSLKSRDRNGN 349 Query: 264 VFYVSTLSKCLLPGLRTAYVVTPEGVGQEELLGALRSFVLMSTPLMTALSTQWIHDGTAD 323 V Y ++L+K L PG+R ++ G V M T + +W AD Sbjct: 350 VIYCASLNKVLAPGMRLGWMNG----------GRWHERVKMLKFTHTRANEEWTQVTAAD 399 Query: 324 KLLEGI--RHEARTRQELALRTLGDADLAGA------------GGIHLWKALPGHWNGPD 369 + RH R RQ L + A+ A GG+ LW LP Sbjct: 400 FIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLPNGGVGLWVELPVQVCSQQ 459 Query: 370 FVLKARQAGLNL----VAHDSFQVGQTDPRQDRTAYIRISLGRSRSGFELVNALRRLMEL 425 +A G+ + + +S + G ++RI G + EL ALRRL L Sbjct: 460 LFERALAEGVGVSPGAIFSNSSRYGH---------FVRICCGHPFN-RELDQALRRLGGL 509 Query: 426 AH 427 H Sbjct: 510 VH 511 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 113/470 (24%), Positives = 185/470 (39%), Gaps = 73/470 (15%) Query: 3 QAISDERLKPGDRLPPQRLLADHLGVDLTTVTRAYTEARRRHLLEARGSAGTFVAAPKVD 62 + + RL GD+LP R++A+ V TV RAY + + R AG FV +VD Sbjct: 42 EGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFV---RVD 98 Query: 63 LSQVIDLSMNIPPPPA-----------------GVDLDDLLRQGVSQILIHSDADLLMTY 105 +QV + P P G+ DL + ++ + + + Sbjct: 99 -NQVANAQTQTAPAPLLTNWRQRLLDPRTLLHRGLGSGDLPAEWINVPQLAAALRAVSRS 157 Query: 106 HLGGGSSADRAAGAMWLQELLGH--------IDERRVLVCPGAQAALAALLLSQ-TQPGE 156 ++ + A G + L++ L + +VL GA A+ +++S QPG Sbjct: 158 NINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTTLGATDAINLIVMSYLRQPGM 217 Query: 157 VILAEPLTYPGLLTAAAQL---GRRVVAVGVDGEGMRPDLLQTMARKHGARLVYLNPTLQ 213 +L + PG +L G +V V D +G LQ +HG + L Sbjct: 218 TVLVDD---PGSFLLMERLLASGMHIVGVARDADGPDITALQNACEQHGPTFYFCQSLLH 274 Query: 214 NPTTHTMPAARRAEIAAVVTRLNLRVIEDDPYWRFA-----AHAPKPLAHYAPQHVFYVS 268 +P + R +I + R N ++EDD Y A HA + + QHV YV Sbjct: 275 SPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPHATRLASLDQLQHVLYVG 334 Query: 269 TLSKCLLPGLRTAYVVTPEGVGQEELLGALRSFVLMSTPLMTALSTQWIH----DGTADK 324 + SK L G+R ++ G + + L + L+S +L+ + I+ +G + Sbjct: 335 SFSKTLGAGMRAGFI-----AGNPQQIEWLLLYKLVSRASNGSLAERAIYRLLSEGGYRR 389 Query: 325 LLEGIR---HEARTRQELALRTLG-------DADLAGAGGIHLWKALPGHWNGPDFVLKA 374 E +R +AR R AL LG DA G++LW LPG N + + Sbjct: 390 HCEQLRTRLDQARPRLMAALEALGIVLPHRPDA------GLYLWGKLPGDLNAMEVAERM 443 Query: 375 RQAGLNLVAHDSFQVGQTDPRQDRTAYIRISLGRSRSGFELVNALRRLME 424 G F GQ +Y+R ++ S E + AL ++E Sbjct: 444 LANGYLTAPGPVFSSGQAA-----RSYMRFNVASSDD--EALRALSNVLE 486 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 0.136 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: 1,356,832 Number of extensions: 55593 Number of successful extensions: 250 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 9 Length of query: 436 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 348 Effective length of database: 1,203,190 Effective search space: 418710120 Effective search space used: 418710120 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)