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= 0001.3000.p (459 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312337|ref|YP_003776429.1| transcription regulator protein... 812 0.0 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 326 2e-90 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 295 5e-81 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 263 2e-71 gi|300311016|ref|YP_003775108.1| MocR family transcription regul... 143 3e-35 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 812 bits (2098), Expect = 0.0, Method: Compositional matrix adjust. Identities = 391/457 (85%), Positives = 418/457 (91%) Query: 2 AQTLTQTLVQSIRRQIADGAYPPGSRLPSIRVLASQHGCAKNTIVNVFEELTAQGVVEPR 61 + TLT TLVQ IRRQIA+G Y PGSRLPSIR +A++HGCAKNTIVNVF+ELTA G+ EPR Sbjct: 5 STTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEPR 64 Query: 62 RGAGFFVCATPPRPKEEEERSLSRAMDVVWLMREQLKHDPGHLRLGDGFPPVEWLHDVRL 121 RGAGFFVC PPRPKE+EE +LSRAMDVVWLMREQLKHDPG LRLGDGFPPVEWLHDVRL Sbjct: 65 RGAGFFVCVAPPRPKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLGDGFPPVEWLHDVRL 124 Query: 122 DKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVHKLAQHGIEAATSQLVLTHGANQALDIV 181 DKFHQKVVRTG+GALFGYGSRFGYLPLRQHLVHKLAQHGIEA T Q+VLTHGANQALDIV Sbjct: 125 DKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIVLTHGANQALDIV 184 Query: 182 IRHFVRPCDRVLVDEPGYYMLYGKLKLSGARIVGIPRQADGPDIEALERELKASGKPPLF 241 IRHF+RP DRVLVDEPGYYMLYGKLKLSGARI+GIPR DGPD+ LEREL GKPPLF Sbjct: 185 IRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLERELHRPGKPPLF 244 Query: 242 FTQSLAHNPTASDTSPHKAHKILQLADRYDALIVENDAFADFKPATAPRIATLDQLRRTL 301 FTQSLAHNPTASDTSPHKAH+ILQLADRY A+IVENDAFADFKPATAPRIATLDQLRRT+ Sbjct: 245 FTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPATAPRIATLDQLRRTV 304 Query: 302 YLGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHVSSSEYCERTLDVILSDGHFSRHT 361 Y+GSFSKSVSAALRVGFIACHRDLASDLADIKMLVH+SSSEYCERTLDVILSDGHFSRHT Sbjct: 305 YVGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHMSSSEYCERTLDVILSDGHFSRHT 364 Query: 362 ARLRERLAQATDAACHQLQQLGAELFCAPQQSMYLWARFPGFADAKQLAQALMAHHVVLA 421 ARLRERLAQAT+ A QL+ LGAELFCAPQQ+MYLWARFP F DAK+LAQ LM +VLA Sbjct: 365 ARLRERLAQATEQARAQLEGLGAELFCAPQQAMYLWARFPWFEDAKRLAQRLMQRQIVLA 424 Query: 422 PGSIFHVETEQKVPWSRFNVGLLADTRFAAAMAELLA 458 PGSIFHV+TEQ PWSRFNVGLLAD RFA AM ++ A Sbjct: 425 PGSIFHVDTEQTQPWSRFNVGLLADARFADAMMDIRA 461 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 326 bits (836), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 188/467 (40%), Positives = 268/467 (57%), Gaps = 21/467 (4%) Query: 4 TLTQTLVQSIRRQIADGAYPPGSRLPSIRVLASQHGCAKNTIVNVFEELTAQGVVEPRRG 63 +L + +V+ IR +I D G R+PSIR A + ++ T+V ++ L AQG +E RRG Sbjct: 39 SLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRRG 98 Query: 64 AGFFVCATPP------RPKEEEERSLSRAMDVVWLMREQLKHDPGHLRLGDGFPPVEWLH 117 +GF+V P + E + R +DVVWL+R + P G G P +WL Sbjct: 99 SGFYVKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPPAKMPGGGLLPPDWLD 158 Query: 118 DVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVHKLAQHGIEAATSQLVLTHGANQA 177 + + V R L GYG+ G+LPLRQ L KLA+ I AA Q+VLT G Q Sbjct: 159 GELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLTTGVTQG 218 Query: 178 LDIVIRHFVRPCDRVLVDEPGYYMLYGKLKLSGARIVGIPRQADGPDIEALERELKASGK 237 LD V RHF+RP D + VD+P +++++G GA++VGIPR DGPDI L REL A K Sbjct: 219 LDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARL-RELAAVHK 277 Query: 238 PPLFFTQSLAHNPTASDTSPHKAHKILQLADRYDALIVENDAFADFKPAT----APRIAT 293 P L+ S+ HNPT++ S KA ++L++A+ +D +IVE+D + D P + A RIA Sbjct: 278 PKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQPATRIAA 337 Query: 294 LDQLRRTLYLGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHVSSSEYCERTLDVILS 353 LDQL+R +YLG FSK++SA LRVG+IA +LA LAD K+L +++ E ER +LS Sbjct: 338 LDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIGERVAYKVLS 397 Query: 354 DGHFSRHTARLRERLAQATDAACHQLQQLGAELFCAPQQSMYLWARFPGFADAKQLAQAL 413 +GH+ +H R+R RL A D QL++LG ++ AP M+LW D + +A Sbjct: 398 EGHYRKHAERVRARLNGARDKVMRQLERLGMDVVEAPPCGMFLWVDT--GRDTNVMTEAA 455 Query: 414 MAHHVVLAPGSIFHVETEQKVP--WSRFNVGLLADT---RFAAAMAE 455 M +LAPGS+F + ++P + R NV +AD RF A E Sbjct: 456 MQEGFLLAPGSLF---SPAQLPSTYMRINVASMADPGIWRFLAQAME 499 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 295 bits (755), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 160/450 (35%), Positives = 246/450 (54%), Gaps = 24/450 (5%) Query: 5 LTQTLVQSIRRQIADGAYPPGSRLPSIRVLASQHGCAKNTIVNVFEELTAQGVVEPRRGA 64 L + + + I G G RLPS+R A H +T+V +E+L A+G+++ RRGA Sbjct: 21 LVEQVANGLAGLIETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGA 80 Query: 65 GFFVCA-----------TPPRPKEEEERSLSRAMDVVWLMREQLKHDPGHLRLGDGFPPV 113 GFFV A PP P +D WL+ E + ++ G G+ P Sbjct: 81 GFFVAARAGQSGQHAVFVPPEP----------VIDSAWLLSEMFADERVPIKAGCGWLPG 130 Query: 114 EWLHDVRLDKFHQKVVRTGMGALFGYGSRFGYLPLRQHLVHKLAQHGIEAATSQLVLTHG 173 +WL+D L + ++++R+ GYG +GY PLRQ + L +E Q++ THG Sbjct: 131 KWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQFLGHWSLELGIEQVLTTHG 190 Query: 174 ANQALDIVIRHFVRPCDRVLVDEPGYYMLYGKLKLSGARIVGIPRQADGPDIEALERELK 233 A QALD+VIR +P D VL+D+PGY L L+L+G ++G+PR G D + LE L Sbjct: 191 ATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLE-TLA 249 Query: 234 ASGKPPLFFTQSLAHNPTASDTSPHKAHKILQLADRYDALIVENDAFADFKPATAPRIAT 293 + P +FFT S+ NPT + +P A ++LQ A+R+ +VE+D F + AT P +A Sbjct: 250 RTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPMLAA 309 Query: 294 LDQLRRTLYLGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHVSSSEYCERTLDVILS 353 LD L+R +Y+GS+SK+++ +LRVG+IAC R+LA + KM++ +++SE ER + +L+ Sbjct: 310 LDGLQRVIYVGSYSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVHNVLT 369 Query: 354 DGHFSRHTARLRERLAQATDAACHQLQQLGAELFCAPQQSMYLWARFPGFA-DAKQLAQA 412 +GH RH L L A +L ++G F A + M+ WA G A+++A Sbjct: 370 EGHHRRHVQTLNATLLSAQATLNAKLSEVGLTPFTAARGGMFSWATIEGCELSAREIADR 429 Query: 413 LMAHHVVLAPGSIFHVETEQKVPWSRFNVG 442 + LAPG FH+ + + RFNVG Sbjct: 430 ARQKGIWLAPGDFFHLSAPHQTSF-RFNVG 458 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 263 bits (672), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 161/432 (37%), Positives = 237/432 (54%), Gaps = 28/432 (6%) Query: 25 GSRLPSIRVLASQHGCAKNTIVNVFEELTAQGVVEPRRGAGFFV----------CATPPR 74 G +LPS+RV+A +++T+ +E+L A G V R GAGFFV T P Sbjct: 52 GDKLPSLRVVAESAQVSRDTVARAYEKLVAHGHVYTRPGAGFFVRVDNQVANAQTQTAPA 111 Query: 75 PKEEEERSLSRAMDVVWLMREQLKHDPGHLRLGDGFPPVEWLHDVRLDKFHQKVVRTGMG 134 P R R +D L+ H LG G P EW++ +L + V R+ + Sbjct: 112 PLLTNWRQ--RLLDPRTLL---------HRGLGSGDLPAEWINVPQLAAALRAVSRSNIN 160 Query: 135 ALFGYGSRFGYLPLRQHLVHKLAQHGIEAATSQLVLTHGANQALDIVIRHFVR-PCDRVL 193 GYG GYLPLRQ L KLA G++ Q++ T GA A+++++ ++R P VL Sbjct: 161 WAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTTLGATDAINLIVMSYLRQPGMTVL 220 Query: 194 VDEPGYYMLYGKLKLSGARIVGIPRQADGPDIEALERELKASGKPPLFFTQSLAHNPTAS 253 VD+PG ++L +L SG IVG+ R ADGPDI AL+ + G P +F QSL H+P + Sbjct: 221 VDDPGSFLLMERLLASGMHIVGVARDADGPDITALQNACEQHG-PTFYFCQSLLHSPGYT 279 Query: 254 DTSPHKAHKILQLADRYDALIVENDAFADFKPAT----APRIATLDQLRRTLYLGSFSKS 309 SP +A +IL+LA+R++ IVE+D + D PA A R+A+LDQL+ LY+GSFSK+ Sbjct: 280 GLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPHATRLASLDQLQHVLYVGSFSKT 339 Query: 310 VSAALRVGFIACHRDLASDLADIKMLVHVSSSEYCERTLDVILSDGHFSRHTARLRERLA 369 + A +R GFIA + L K++ S+ ER + +LS+G + RH +LR RL Sbjct: 340 LGAGMRAGFIAGNPQQIEWLLLYKLVSRASNGSLAERAIYRLLSEGGYRRHCEQLRTRLD 399 Query: 370 QATDAACHQLQQLGAELFCAPQQSMYLWARFPGFADAKQLAQALMAHHVVLAPGSIFHVE 429 QA L+ LG L P +YLW + PG +A ++A+ ++A+ + APG +F Sbjct: 400 QARPRLMAALEALGIVLPHRPDAGLYLWGKLPGDLNAMEVAERMLANGYLTAPGPVFS-S 458 Query: 430 TEQKVPWSRFNV 441 + + RFNV Sbjct: 459 GQAARSYMRFNV 470 >gi|300311016|ref|YP_003775108.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 480 Score = 143 bits (361), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 109/432 (25%), Positives = 198/432 (45%), Gaps = 29/432 (6%) Query: 17 IADGAYPPGSRLPSIRVLASQHGCAKNTIVNVFEELTAQGVVEPRRGAGFFVCATPPRPK 76 I DG PG R+ S+R+ + QH + T+V +E L ++G++E + +G+FV P P Sbjct: 18 IRDGVLRPGERIASVRIASQQHKVSVTTVVRAYELLESRGIIESQPQSGYFVREQPEAPP 77 Query: 77 EEEERSLSR----------AMDVVWLMREQLK--HDPGHLRLGDGFPPVEWLHDVRLDKF 124 + R+ SR +DV L+ LK G + LG +P RL ++ Sbjct: 78 KPALRTTSREDHPAWQESTEVDVSRLVLATLKTIQQDGTVPLGSPYPNPALFPSHRLAQY 137 Query: 125 HQKVVRTGMGALFGYGSRFGYLP-----LRQHLVHKLAQHGIEAATSQLVLTHGANQALD 179 ++ R S F LP L + + + ++G++ ++V+T GA +A++ Sbjct: 138 AGRIARHA-----SQSSVFDDLPPGHPELLRQIARRYLENGLKVDPEEIVITVGATEAIN 192 Query: 180 IVIRHFVRPCDRVLVDEPGYYMLYGKLKLSGARIVGIPRQAD-GPDIEALERELKASGKP 238 + ++ RP D + V+ P +Y + ++ G R + IP G D+ ALE +K Sbjct: 193 LCLQAVARPGDTIAVETPTFYAMLHAIERLGMRALEIPTDPQRGIDVGALEERMKTQAIA 252 Query: 239 PLFFTQSLAHNPTASDTSPHKAHKILQLADRYDALIVENDAFAD--FKPATAPRIATLDQ 296 + NP + ++++LA+++ ++EN +++ + A + D+ Sbjct: 253 ACMVMPNF-QNPLGFQMPDSEKERLVRLAEQHQMPVIENAVYSELYYGNAHPSSLKNYDR 311 Query: 297 LRRTLYLGSFSKSVSAALRVGFIACHRDLASDLADIKMLVHVSSSEYCERTLDVILSDGH 356 L+ SFSKS+++A R+G+ R A + +K L +++ +R + L+ G Sbjct: 312 DGLVLHCSSFSKSLTSAYRIGWAMPGRYRA-QVEKLKFLNTLATPTAPQRAIAEYLTQGG 370 Query: 357 FSRHTARLRERLAQATDAACHQLQQL--GAELFCAPQQSMYLWARFPGFADAKQLAQALM 414 + RH R+R AQ D H + + PQ LW P DA +L + + Sbjct: 371 YERHLRRVRRAFAQQRDMMRHFVLRFFPAGTQVSEPQGGYVLWVELPQGVDAMELYRRSL 430 Query: 415 AHHVVLAPGSIF 426 A + +APG IF Sbjct: 431 ALGITVAPGRIF 442 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 0.323 0.136 0.411 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: 1,504,401 Number of extensions: 64791 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 12 Length of query: 459 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 371 Effective length of database: 1,203,190 Effective search space: 446383490 Effective search space used: 446383490 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 132 (55.5 bits)