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= 0001.0559.p (357 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309932|ref|YP_003774024.1| transcription regulator protein... 596 e-171 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 134 1e-32 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 124 1e-29 gi|300311924|ref|YP_003776016.1| transcription repressor for pur... 123 3e-29 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 120 2e-28 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 596 bits (1536), Expect = e-171, Method: Compositional matrix adjust. Identities = 301/351 (85%), Positives = 321/351 (91%), Gaps = 2/351 (0%) Query: 1 VRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 +RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS Sbjct: 1 MRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 Query: 61 RTVGVVLPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEESAAVELLLGHRVDGV 120 RTVGVV+PTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEE+AAVELLLGHRVDG+ Sbjct: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM 120 Query: 121 ILTVADAGANATLDLLERERIPFVLTYNQLAGVETVA-HRASVSVDNRVAACDAVAYLIG 179 ILTVADA ANATLDLLERERIPFVL YNQL +T A RASVSVDNR AACDAVA+LIG Sbjct: 121 ILTVADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG 180 Query: 180 LGHRRIQMLSGRFTASDRAMQRYYGYLDTMRAAGLAPLPAIEVERHTLTAAADYQQMMAD 239 LGHRRIQMLSGRF ASDRAMQRYYGYLD MRAAGLAP+ IEVERHTLTAAADYQQMMAD Sbjct: 181 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQQMMAD 240 Query: 240 PQQRPTALFCSNDLLALSAMRDLRALGLQVPGDISVMGFDGIPVGALVQPVLASVVQPSE 299 P+QRPTALFCSNDLLA+SAMRDLRALG++VP DISVMGFDGIPVGAL++PVLASVVQPSE Sbjct: 241 PRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSE 300 Query: 300 QIGEVALRTLVDAIERAVPAVADVEGAAPVVAAAEVRHILPHVLRQGGSVA 350 QIGEVALR LV+AIER + A ++A+ +RHILPH +R GGSVA Sbjct: 301 QIGEVALRVLVEAIERNA-SAAAAAAPDLALSASWLRHILPHAVRSGGSVA 350 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 100/327 (30%), Positives = 168/327 (51%), Gaps = 25/327 (7%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 +IK VA LAGVS TVS +LN+ VS++ E++ ++ EL + P+ R+LR+ + ++ Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 64 GVVLPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEESAAVELLLGHRVDGVI-- 121 G+++P +N F++ +GIE YSV+ ++ P+++ +++L DG+I Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 122 -LTVADAGANATLDLLERERIPFVLTYNQLAGVETVAHRASVSVDNRVAACDAVAYLIGL 180 L AD LD IP VL ++ VS DN V A +L+ L Sbjct: 123 TLNQADLNPAGKLD------IPTVLLDRAPKELDI----DLVSTDNAVGGSLAARHLLDL 172 Query: 181 GHRRIQMLSGR--FTASDRAMQRYYGYLDTMRAAGLAPLPAIEVERHTLTAAADYQQMMA 238 R+ ++G SD +R G+ T+ GLA L ++ + YQ M Sbjct: 173 RRCRVACIAGPDGLELSD---ERVRGFRQTLEQGGLA-LADSDLLHADFSGIGGYQAAMR 228 Query: 239 DPQ-----QRPTALFCSNDLLALSAMRDLRALGLQVPGDISVMGFDGIPVGALVQPVLAS 293 Q QRP A+FC ND++A+ +R L ++VPG++SV+GFD I + V P L + Sbjct: 229 LLQGRPADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTT 288 Query: 294 VVQPSEQIGEVALRTLVDAI-ERAVPA 319 V Q + ++G + + L++ I + ++PA Sbjct: 289 VAQNTRKLGNLTAQFLLERIADPSLPA 315 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 124 bits (311), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 97/321 (30%), Positives = 160/321 (49%), Gaps = 13/321 (4%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 ++ +VA LAGV+ ATVS +L + G V +T +++ ++A+LG+RP+ T R L G + T+ Sbjct: 3 TLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPTL 62 Query: 64 GVVLPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEESAAVELLLGHRVDGVILT 123 +V+ +++N + + E AAR ++ T P+ A ++ + G DGV++ Sbjct: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 Query: 124 VADAGANATLDLL---ERERIPFVLTYNQLAGVETVAHRASVSVDNRVAACDAVAYLIGL 180 AN +D L E+ P VL + + ++VD A A +L+GL Sbjct: 123 ----NANLPMDELRKTEQRGAPVVLCMWEKP--DAPPELPCIAVDFFEAGAIAARHLLGL 176 Query: 181 GHRRIQMLSGRFTASDRAMQRYYGYLDTMRAAGLAPLPAIEVERHTLTAAADYQQMMADP 240 GH+ L G + A +RY G+ + AG P P T + Y+ M Sbjct: 177 GHQCFAALVGSKKSGIHA-ERYRGFASACKEAG-HPHPTQRTRYINDTVESGYRATMELL 234 Query: 241 QQRP--TALFCSNDLLALSAMRDLRALGLQVPGDISVMGFDGIPVGALVQPVLASVVQPS 298 ++ P TA+F SNDL AL AM + +G+ VP D+SV G I + +P L +V P+ Sbjct: 235 REHPQVTAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALTTVAVPT 294 Query: 299 EQIGEVALRTLVDAIERAVPA 319 E +++ L+ IER P+ Sbjct: 295 EAAARMSIELLLALIERRSPS 315 >gi|300311924|ref|YP_003776016.1| transcription repressor for pur regulon regulator protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 107/339 (31%), Positives = 164/339 (48%), Gaps = 34/339 (10%) Query: 2 RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSR 61 R +IK VA AGVS TVS +LN P V+ T E + +I L F PN R+LR ++R Sbjct: 3 RLTIKDVAKAAGVSFQTVSLVLNHPEKVAPRTRELVQAAIDALNFIPNVAARSLRNISTR 62 Query: 62 TVGVVLPTLS----------NTVFAQCLQGIELAARALDYSVMFTTTEYLPEEESAAV-- 109 T+ V+ S +T + +Q + AA Y+++ + E+E++ V Sbjct: 63 TLACVMFNGSSYDERSERTQDTHYHNVVQTLTRAADRAGYTLL--QRNLMREDEASLVYV 120 Query: 110 -ELLLGHRVDGVILTVADAGANATLDLLERERIPFVLTYNQLAGVETVAHRASVSVDNRV 168 +L L R+DG+I V AG N + L R P V+ G+ A V D R Sbjct: 121 RDLFLAGRIDGMIAMVNRAG-NPVVSELHRLGYPCVVY-----GMADPACHHVVQSD-RQ 173 Query: 169 AACDAVAYLIGLGHRRIQMLSG--RFTASDRAMQ---------RYYGYLDTMRAAGLAPL 217 A V +L G RRI +++G + ++ + RY+GYLD + GL P Sbjct: 174 AGLAVVEHLYRSGCRRIALVTGPQKDHQPGKSREQGVPTSSEARYFGYLDGLEKCGLTPR 233 Query: 218 PAIEVE-RHTLTAAADYQQMMADPQQRPTALFCSNDLLALSAMRDLRALGLQVPGDISVM 276 P V +L + + +RP A+F ND +AL A++ L LG++VP +ISV+ Sbjct: 234 PEWVVTGDWSLESGYRAAAQLCHQAERPDAIFLGNDRMALGALKALYDLGVKVPHEISVV 293 Query: 277 GFDGIPVGALVQPVLASVVQPSEQIGEVALRTLVDAIER 315 GFD + P L SV P ++ E A++ L++ IE+ Sbjct: 294 GFDNMRYDDFSIPSLTSVDAPMLEMCEFAVKLLLERIEQ 332 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 120 bits (300), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 95/314 (30%), Positives = 151/314 (48%), Gaps = 15/314 (4%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 +++ VA LAGV+ T SR LN P +VS + +K+ ++ + G+ PN L + SR V Sbjct: 37 TLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLV 96 Query: 64 GVVLPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEESAAVELLLGHRVDGVILT 123 VV+PT+ VF + + + A Y VM + Y E A +E ++G R DGV+LT Sbjct: 97 AVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLT 156 Query: 124 VADAGANATLDLLERERIPFVLTYNQLAGVETVAHRASVSVDNRVAACDAVAYLIGLGHR 183 A A LL IP V T++ + V + + YL G + Sbjct: 157 GIMRSAEARKRLLA-SGIPVVETWD----LTPTPIDMLVGFSHEAIGREVARYLHQRGRK 211 Query: 184 RIQMLSGRFTASDRAMQRYYGYLDTMRAAGL----APLPAIEVERHTLTAAADYQQMMAD 239 ++ ++ GR +R+ +R + A G+ APLP V T T Q + Sbjct: 212 KVAVVGGR---DERSQRRMNAFAQECVALGMHEGRAPLPMHHVTAPT-TLGQGRQGLAEL 267 Query: 240 PQQRP--TALFCSNDLLALSAMRDLRALGLQVPGDISVMGFDGIPVGALVQPVLASVVQP 297 Q +P A+FCS+DLLAL M + ++ G+ +P ++V+GF + +QP L +V Sbjct: 268 LQAQPDLDAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRLTTVRID 327 Query: 298 SEQIGEVALRTLVD 311 IG+ A R ++D Sbjct: 328 GTGIGQRAARFIID 341 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 0.133 0.369 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: 979,115 Number of extensions: 39773 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 178 Number of HSP's successfully gapped: 8 Length of query: 357 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 271 Effective length of database: 1,212,660 Effective search space: 328630860 Effective search space used: 328630860 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: 131 (55.1 bits)