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= 0029.0048.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310738|ref|YP_003774830.1| transcription regulator protein... 183 2e-47 gi|300311999|ref|YP_003776091.1| GntR family transcription regul... 77 1e-15 gi|300313534|ref|YP_003777626.1| GntR family transcription regul... 62 3e-11 gi|300310477|ref|YP_003774569.1| GntR family transcription regul... 62 7e-11 gi|300311599|ref|YP_003775691.1| transcription regulator protein... 59 3e-10 >gi|300310738|ref|YP_003774830.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 234 Score = 183 bits (464), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 101/223 (45%), Positives = 135/223 (60%), Gaps = 6/223 (2%) Query: 20 SSSLPEYVYARLREDIFEMRLLPGDQVTETEVAAYFKVSRTPVREALQRLQSDGLMQGYV 79 +++L E VY RL++DIF RLLPGD TETE+A VSRTP+R+AL RLQ +G ++ Sbjct: 6 ANALAEQVYHRLKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGF 65 Query: 80 RGGWEVVPMDFKRFADLYELRQLIEVHAVRRLCAGHADGKRAIDMAQIEALKADWCVPVE 139 R GW+V P+DF R +LY+LR ++E+ A+ +LC+ A++ L A W + Sbjct: 66 RRGWKVCPIDFDRLDNLYDLRIVLEMAALDKLCSQPEAS------AELTQLNAIWLAEPD 119 Query: 140 QRLTDGRAAAALDEAFHQTLVRATGNQEMASAFDRLTDRIRIVRRLDFVYGDCVGSTYEE 199 R TD A LDEAFH LV A GN+EM +T++IRIVRRLDF+ + +TYEE Sbjct: 120 ARQTDAVKVAQLDEAFHTNLVAAAGNEEMTRVHTEVTEKIRIVRRLDFLKKKRIDATYEE 179 Query: 200 HAAILAQIDARAGDEAVRLITEHIDGSHAEVNQITLHRLHSAR 242 H IL I R EA L+ HI S EV +IT+ L AR Sbjct: 180 HGKILQLIAKRKATEAQILLRAHITQSKLEVRKITIWMLAEAR 222 >gi|300311999|ref|YP_003776091.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 77.4 bits (189), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/217 (30%), Positives = 103/217 (47%), Gaps = 12/217 (5%) Query: 31 LREDIFEM----RLLPGDQVTETEVAAYFKVSRTPVREALQRLQSDGLMQGYVRGGWEVV 86 LRE I E+ +L PG + ET +A F VSRTP+REAL +L S G+++ R G V Sbjct: 11 LRESIEELIAVSKLSPGQHLDETSLAEEFGVSRTPIREALIQLASMGIVEMRPRRGAIVA 70 Query: 87 PMDFKRFADLYELRQLIEVHAVRRLCAGHADGKRAIDMAQIEALKADWCVPVEQRLTDGR 146 + ++ +++E+ E +C G +R E L A + D Sbjct: 71 EIGPQQLIEMFEVMAEFEA-----MC-GRLAARRMTPAEHAELLAAHQACQAARDANDPD 124 Query: 147 AAAALDEAFHQTLVRATGNQEMASAFDRLTDRIRIVRRLDFVYGDCVGSTYEEHAAILAQ 206 A L+EAFH + + N +A L R+R RRL D + S+++EH A++ Sbjct: 125 AYFYLNEAFHDHIYAGSHNGFLADQARALHRRLRPYRRLQLRVRDRLKSSFDEHQAVVDA 184 Query: 207 IDARAGDEAVRLITEH--IDGSHAEVNQITLHRLHSA 241 I + ++ V L+ EH I G +LH+L SA Sbjct: 185 IISGDAEKTVDLLREHIMIQGQRFADLVASLHQLKSA 221 >gi|300313534|ref|YP_003777626.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 249 Score = 62.4 bits (150), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 105/234 (44%), Gaps = 26/234 (11%) Query: 4 SPDPSLMDSVAAEPAKSSSLPEYVYARLREDIFEMRLLPGDQVTETEVAAYFKVSRTPVR 63 S +PSL KSSS + R+ E I +L PG ++ E ++A FKVSRT VR Sbjct: 2 STNPSL---------KSSS---QIAVRITEAILAKQLAPGTRLGEQQLADLFKVSRTQVR 49 Query: 64 EALQRLQSDGLMQGYVRGGWEVVPMDFKRFADLYELRQLIEVHAVR----RLCAGHADGK 119 EAL L + G++ R GW V+ + + +E R++IE+ +R R A G+ Sbjct: 50 EALTHLMARGIVTVSARRGWFVIEPTPAQAREAFEARRVIELGLLRQARLRPVGDTAIGQ 109 Query: 120 RAIDMAQIEALKADWCVPVEQRLTDGRAAAALDEAFHQTLVRATGNQEMASAFDRLTDRI 179 +A+ EA A D A + L FH L GN +A LT R Sbjct: 110 LREHIAREEAAIAG---------ADVGARSYLLGDFHVCLAECLGNSLLAETLRDLTART 160 Query: 180 RIVRRLDFVYGDCVGSTYEEHAAILAQIDARAGDEAVRLITEHIDGSHAEVNQI 233 + L + + EH I+ ++ ++A +L+ +H+ + +NQ+ Sbjct: 161 TLTAML-HQSSEQAEDSCSEHVLIVEALERGDLEQAEQLMHDHLQHVESGLNQV 213 >gi|300310477|ref|YP_003774569.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 61.6 bits (148), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 60/211 (28%), Positives = 96/211 (45%), Gaps = 14/211 (6%) Query: 27 VYARLREDIFEMRLLPGDQVTETEVAAYFKVSRTPVREALQRLQSDGLMQGYVRGGWEVV 86 V+ LRE I MRL P + E+AA + +S+TP+R+AL +L +GL+ + + V Sbjct: 26 VFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTPIRDALIKLGEEGLVDIFPQHATVVS 85 Query: 87 PMDFKRFADLYELRQLIEVHAVRRLCAGHADGKRAIDMAQIEALKADWCVPVEQRLTDGR 146 ++ + LR+ IE+ V L A D A + L+ V QR+ GR Sbjct: 86 AVNVTLARQAHFLRRSIELEIVHTLAA-------QADAALVNRLRDSIEV---QRVLAGR 135 Query: 147 AAAA----LDEAFHQTLVRATGNQEMASAFDRLTDRIRIVRRLDFVYGDCVGSTYEEHAA 202 A D+AFH+ + A E+ S R + + +R L +HAA Sbjct: 136 ENYAEFVLADQAFHRQMYEAAQVPELWSMVRRQSGHLDRLRNLHVPIPGKTARVLRDHAA 195 Query: 203 ILAQIDARAGDEAVRLITEHIDGSHAEVNQI 233 I+ I A A + EH+ G+ A++ +I Sbjct: 196 IVDAIAAGDPAAAQAALREHLSGTLAQLEEI 226 >gi|300311599|ref|YP_003775691.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 243 Score = 59.3 bits (142), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/249 (24%), Positives = 110/249 (44%), Gaps = 21/249 (8%) Query: 8 SLMDSVAAEPAKSSSLPEYVYARLREDIFEMRLLPGDQVTETEVAAYFKVSRTPVREALQ 67 S + S+ + +L E+V+ +++ I + + PG +++E E+A + +SR P+REA+ Sbjct: 2 SELISLPGNDREGETLSEHVFRKIQSAIVQGEIAPGSKISEPELARTYGISRGPLREAIH 61 Query: 68 RLQSDGLMQGYVRGGWEVVPMDFKRFADLYELRQLIEVHAVR----RLCAGHADG-KRAI 122 RL+ L+ G VV + + +L+++R+ +E A R R+ D +R + Sbjct: 62 RLEGQNLLVRVPHVGARVVSLTLEGLVELFQIRESLEGMACRLAAQRMSRAELDELRRVL 121 Query: 123 DMAQI-EALKADWCVPVEQRLTDGRAAAALDEAFHQTLVRATGNQEMASAF-DRLTDRIR 180 D + EA +A G D FH +++A+GNQ + L R Sbjct: 122 DTHEKDEAFQAGR----------GYYQQEGDYDFHYKIIQASGNQILTRILCGELYQLAR 171 Query: 181 IVRRLDFVYGDCVGSTYEEHAAILAQIDARAGDEAVRLITEHIDGSHAEVNQITLHRLHS 240 + R + EH IL + G+ A L+ HI S + H++ Sbjct: 172 MYRIQYSATPHRPRQAFAEHHRILDALADGDGELADLLMRRHIGASRRNIE----HQIAQ 227 Query: 241 ARASAATER 249 A+A A +R Sbjct: 228 AQAGGAGKR 236 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 0.134 0.387 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: 808,673 Number of extensions: 32785 Number of successful extensions: 147 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 145 Number of HSP's successfully gapped: 9 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 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: 129 (54.3 bits)