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= 0239.0002.p (575 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 561 e-161 gi|300313927|ref|YP_003778019.1| HAD (haloacid dehalogenase) hyd... 308 8e-85 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 246 3e-66 gi|300312337|ref|YP_003776429.1| transcription regulator protein... 235 8e-63 gi|300312133|ref|YP_003776225.1| transcription regulator protein... 191 2e-49 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 561 bits (1445), Expect = e-161, Method: Compositional matrix adjust. Identities = 272/347 (78%), Positives = 299/347 (86%), Gaps = 8/347 (2%) Query: 14 MAKAQREAVYLTLERNGAKGGARGAGNRLVEQVVSGLAQLIEQGALRSGERLPSVRQFAE 73 MAK R + L L+R + RLVEQV +GLA LIE G LRSGERLPSVRQFA+ Sbjct: 1 MAKPARAPLQLDLKRKTSA--------RLVEQVANGLAGLIETGELRSGERLPSVRQFAQ 52 Query: 74 SHAIGASTVVEAYEQLVARGLLIVRRGAGFFIAARGANPPPAMAFTPPDPVIDSAWLLSE 133 H IG+STVVEAYEQLVARG+L RRGAGFF+AAR F PP+PVIDSAWLLSE Sbjct: 53 HHDIGSSTVVEAYEQLVARGMLQARRGAGFFVAARAGQSGQHAVFVPPEPVIDSAWLLSE 112 Query: 134 MFADERVPIKAGCGWLPGKWLDDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQIICQF 193 MFADERVPIKAGCGWLPGKWL+DEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQ+I QF Sbjct: 113 MFADERVPIKAGCGWLPGKWLNDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQLITQF 172 Query: 194 LANWSLEVSLDQVLTSHGATQGLDLIIRTMVKRGDTVFVDDPGYCNLIAMLRMADLNVIG 253 L +WSLE+ ++QVLT+HGATQ LDL+IRTM + GDTV +DDPGYCNLIAMLR+A LNVIG Sbjct: 173 LGHWSLELGIEQVLTTHGATQALDLVIRTMTQPGDTVLIDDPGYCNLIAMLRLAGLNVIG 232 Query: 254 IPRTPTGVDTEMLETLARTHKPKLFFTTSVLHNPTGTSYTPACAMRVLQAAERHGFWVVE 313 +PRTP GVDT++LETLARTH PK+FFTTSVL NPTGTSYTPACAMRVLQAAERHGFWVVE Sbjct: 233 VPRTPGGVDTDVLETLARTHHPKMFFTTSVLQNPTGTSYTPACAMRVLQAAERHGFWVVE 292 Query: 314 DDIFRELGQPTDPMLAALDGLQRVIYVGSYSKTIAPSLRLGFIACXK 360 DDIFRELGQ TDPMLAALDGLQRVIYVGSYSKTIAPSLR+G+IAC + Sbjct: 293 DDIFRELGQATDPMLAALDGLQRVIYVGSYSKTIAPSLRVGYIACQR 339 >gi|300313927|ref|YP_003778019.1| HAD (haloacid dehalogenase) hydrolase superfamily protein [Herbaspirillum seropedicae SmR1] Length = 213 Score = 308 bits (789), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 139/211 (65%), Positives = 170/211 (80%) Query: 365 YASPAGIRAVVFDFGGVLFDWNPLHLYQDLIPDAAEREHFLTNVCSPDWNIRQDGGRTLK 424 +++P+ IRAVVFDFGGVLFDWNP +LY+ LI D +R HFLT++CSP+WN++QDGGR+L Sbjct: 3 FSAPSPIRAVVFDFGGVLFDWNPQYLYRQLIADEQQRNHFLTHICSPEWNVQQDGGRSLA 62 Query: 425 DGTELLVAEHPQHEPMIRAFYDRWTDMLRGPLHDGVELLRTLHDKHVPLFGLTNWSSETF 484 + T L+ +HPQHE +IRAFYDRW +MLRGPL +GV LLR LH + VPLFGLTNWS+ET+ Sbjct: 63 EATAHLIQQHPQHETLIRAFYDRWVEMLRGPLPEGVALLRELHAQQVPLFGLTNWSAETY 122 Query: 485 PYALANYDFLQIFRDIVVSGTEQCIKPDAVIYQIALTRYGEHLPGLKPSELVFLDDNAHN 544 P+A N+DF+Q+FRDIVVSG E+CIKP+ IYQIAL RY HLPGLKP ELVF+DD N Sbjct: 123 PHARDNHDFMQLFRDIVVSGHERCIKPEPRIYQIALERYARHLPGLKPEELVFIDDAEKN 182 Query: 545 VDAARRLGWHAIHHVDCAETVKQLRELGLPV 575 + A R LGW +HHVD A T QLR LGLPV Sbjct: 183 IHACRALGWQGVHHVDAAGTRAQLRALGLPV 213 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 246 bits (629), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 143/332 (43%), Positives = 196/332 (59%), Gaps = 9/332 (2%) Query: 36 RGAGNRLVEQVVSGLAQLIEQGALRSGERLPSVRQFAESHAIGASTVVEAYEQLVARGLL 95 R +G+ LVEQ+V G+ I+ LRSG R+PS+RQFA+++ I TVVEAY++LVA+G L Sbjct: 34 RESGDSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYL 93 Query: 96 IVRRGAGFFIAAR---GANPPPAMAF--TPPDPVIDSAWLLSEMFADERVPIKAGCGWLP 150 RRG+GF++ R G + A A T P +D WL+ MF G G LP Sbjct: 94 ESRRGSGFYVKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPPAKMPGGGLLP 153 Query: 151 GKWLDDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQIICQFLANWSLEVSLDQVLTSH 210 WLD E + A R + R +GYG P G+ PLRQ + LA + + +Q++ + Sbjct: 154 PDWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQLKLAELEIAAAPEQIVLTT 213 Query: 211 GATQGLDLIIRTMVKRGDTVFVDDPGYCNLIAMLRMADLNVIGIPRTPTGVDTEMLETLA 270 G TQGLD + R ++ GD +FVDDP + + V+GIPR G D L LA Sbjct: 214 GVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARLRELA 273 Query: 271 RTHKPKLFFTTSVLHNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFREL--GQPTDPM- 327 HKPKL+ SVLHNPT TS + A A +VL+ AE H F +VEDDI+ ++ G P Sbjct: 274 AVHKPKLYVINSVLHNPTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQPAT 333 Query: 328 -LAALDGLQRVIYVGSYSKTIAPSLRLGFIAC 358 +AALD LQRVIY+G +SKT++ +LR+G+IA Sbjct: 334 RIAALDQLQRVIYLGGFSKTLSANLRVGYIAT 365 >gi|300312337|ref|YP_003776429.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 469 Score = 235 bits (599), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 126/334 (37%), Positives = 186/334 (55%), Gaps = 22/334 (6%) Query: 38 AGNRLVEQVVSGLAQLIEQGALRSGERLPSVRQFAESHAIGASTVVEAYEQLVARGLLIV 97 A L +V + + I +G G RLPS+R+ A H +T+V +++L A GL Sbjct: 4 ASTTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEP 63 Query: 98 RRGAGFFIAARGANPPPAMAFTPPDP----------VIDSAWLLSEMFADERVPIKAGCG 147 RRGAGFF+ PP P +D WL+ E + ++ G G Sbjct: 64 RRGAGFFVCV-----------APPRPKEDEEGNLSRAMDVVWLMREQLKHDPGQLRLGDG 112 Query: 148 WLPGKWLDDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQIICQFLANWSLEVSLDQVL 207 + P +WL D L + ++++R+ GYG +GY PLRQ + LA +E Q++ Sbjct: 113 FPPVEWLHDVRLDKFHQKVVRTGIGALFGYGSRFGYLPLRQHLVHKLAQHGIEAGTGQIV 172 Query: 208 TSHGATQGLDLIIRTMVKRGDTVFVDDPGYCNLIAMLRMADLNVIGIPRTPTGVDTEMLE 267 +HGA Q LD++IR ++ GD V VD+PGY L L+++ +IGIPR P G D +LE Sbjct: 173 LTHGANQALDIVIRHFIRPGDRVLVDEPGYYMLYGKLKLSGARIIGIPRLPDGPDVAVLE 232 Query: 268 -TLARTHKPKLFFTTSVLHNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQPTDP 326 L R KP LFFT S+ HNPT + +P A R+LQ A+R+ +VE+D F + T P Sbjct: 233 RELHRPGKPPLFFTQSLAHNPTASDTSPHKAHRILQLADRYQAIIVENDAFADFKPATAP 292 Query: 327 MLAALDGLQRVIYVGSYSKTIAPSLRLGFIACXK 360 +A LD L+R +YVGS+SK+++ +LR+GFIAC + Sbjct: 293 RIATLDQLRRTVYVGSFSKSVSAALRVGFIACHR 326 >gi|300312133|ref|YP_003776225.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 191 bits (484), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 122/333 (36%), Positives = 184/333 (55%), Gaps = 15/333 (4%) Query: 34 GARGAGNRLVEQVVSGLAQLIEQGALRSGERLPSVRQFAESHAIGASTVVEAYEQLVARG 93 G + + LV+++ + + + + L G++LPS+R AES + TV AYE+LVA G Sbjct: 24 GDKHSARLLVDRIFTAVLEGVRTRRLAHGDKLPSLRVVAESAQVSRDTVARAYEKLVAHG 83 Query: 94 LLIVRRGAGFFIAARG--ANPPPAMAFTPPDPVIDSAWLLSEMFADERVPIKAGCGW--L 149 + R GAGFF+ AN A T P P++ + W + D R + G G L Sbjct: 84 HVYTRPGAGFFVRVDNQVAN---AQTQTAPAPLLTN-W--RQRLLDPRTLLHRGLGSGDL 137 Query: 150 PGKWLDDEGLHQAERRIIRSPGAQQVGYGHPYGYAPLRQIICQFLANWSLEVSLDQVLTS 209 P +W++ L A R + RS GYG GY PLRQ + + LA+ ++V+ QVLT+ Sbjct: 138 PAEWINVPQLAAALRAVSRSNINWAAGYGDAQGYLPLRQQLQRKLADIGVDVTPPQVLTT 197 Query: 210 HGATQGLDLIIRTMVKR-GDTVFVDDPGYCNLIAMLRMADLNVIGIPRTPTGVDTEMLET 268 GAT ++LI+ + +++ G TV VDDPG L+ L + ++++G+ R G D L+ Sbjct: 198 LGATDAINLIVMSYLRQPGMTVLVDDPGSFLLMERLLASGMHIVGVARDADGPDITALQN 257 Query: 269 LARTHKPKLFFTTSVLHNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELG----QPT 324 H P +F S+LH+P T +P A ++L+ AER F +VEDD + +L P Sbjct: 258 ACEQHGPTFYFCQSLLHSPGYTGLSPQRAFQILRLAERFNFTIVEDDTYGDLAPAHRSPH 317 Query: 325 DPMLAALDGLQRVIYVGSYSKTIAPSLRLGFIA 357 LA+LD LQ V+YVGS+SKT+ +R GFIA Sbjct: 318 ATRLASLDQLQHVLYVGSFSKTLGAGMRAGFIA 350 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 0.322 0.139 0.430 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: 1,824,781 Number of extensions: 77575 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 222 Number of HSP's successfully gapped: 12 Length of query: 575 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 485 Effective length of database: 1,193,720 Effective search space: 578954200 Effective search space used: 578954200 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: 133 (55.8 bits)