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= 0005.0009.p (382 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... 576 e-165 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 129 5e-31 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 127 1e-30 gi|300311924|ref|YP_003776016.1| transcription repressor for pur... 125 6e-30 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 124 2e-29 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 576 bits (1485), Expect = e-165, Method: Compositional matrix adjust. Identities = 288/321 (89%), Positives = 301/321 (93%), Gaps = 5/321 (1%) Query: 1 VRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 +RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS Sbjct: 1 MRPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 Query: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEDESAAVELLLGHRVDGV 120 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPE+E+AAVELLLGHRVDG+ Sbjct: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM 120 Query: 121 ILTVADAGANATLDLLERERIPFVLAYNQLADAAADADAEAATHRASVSVDNRAAACDAV 180 ILTVADA ANATLDLLERERIPFVLAYNQL D AA RASVSVDNRAAACDAV Sbjct: 121 ILTVADASANATLDLLERERIPFVLAYNQLG-----TDQTAAPARASVSVDNRAAACDAV 175 Query: 181 SHLIGLGHRRIQMLSGRFNASDRAMQRYCGYLDAMQAAGLAPLPAIEVERHTLTAATDYQ 240 +HLIGLGHRRIQMLSGRFNASDRAMQRY GYLDAM+AAGLAP+ IEVERHTLTAA DYQ Sbjct: 176 AHLIGLGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQ 235 Query: 241 QMMADPLHRPTALFCSNDLLALSAMRDLRALGLQVPEDISVMGFDGIPVGALMQPVLASV 300 QMMADP RPTALFCSNDLLA+SAMRDLRALG++VP DISVMGFDGIPVGALM+PVLASV Sbjct: 236 QMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASV 295 Query: 301 VQPSEQIGDVALRTLVDAIER 321 VQPSEQIG+VALR LV+AIER Sbjct: 296 VQPSEQIGEVALRVLVEAIER 316 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 129 bits (323), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 101/323 (31%), Positives = 159/323 (49%), Gaps = 19/323 (5%) 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 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEDESAAVELLLGHRVDGVILT 123 +VV +++N + + E AAR ++ T P+ A ++ + G DGV++ Sbjct: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 Query: 124 VADAGANATLDLL---ERERIPFVLAYNQLADAAADADAEAATHRASVSVDNRAAACDAV 180 AN +D L E+ P VL + DA + ++VD A A Sbjct: 123 ----NANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPC--------IAVDFFEAGAIAA 170 Query: 181 SHLIGLGHRRIQMLSGRFNASDRAMQRYCGYLDAMQAAGLAPLPAIEVERHTLTAATDYQ 240 HL+GLGH+ L G + A +RY G+ A + AG P P T + Y+ Sbjct: 171 RHLLGLGHQCFAALVGSKKSGIHA-ERYRGFASACKEAG-HPHPTQRTRYINDTVESGYR 228 Query: 241 QMMADPLHRP--TALFCSNDLLALSAMRDLRALGLQVPEDISVMGFDGIPVGALMQPVLA 298 M P TA+F SNDL AL AM + +G+ VP D+SV G I + +P L Sbjct: 229 ATMELLREHPQVTAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALT 288 Query: 299 SVVQPSEQIGDVALRTLVDAIER 321 +V P+E +++ L+ IER Sbjct: 289 TVAVPTEAAARMSIELLLALIER 311 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 127 bits (319), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 96/326 (29%), Positives = 165/326 (50%), Gaps = 30/326 (9%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 +IK VA LAGVS TVS +LN+ VS++ E++ ++ EL + P+ R+LR+ + ++ Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEDESAAVELLLGHRVDGVI-- 121 G+++P +N F++ +GIE YSV+ ++ P+ + +++L DG+I Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 122 -LTVADAGANATLDLLERERIPFVLAYNQLADAAADADAEAATHRASVSVDNRAAACDAV 180 L AD LD IP VL L A + D + VS DN A Sbjct: 123 TLNQADLNPAGKLD------IPTVL----LDRAPKELDIDL------VSTDNAVGGSLAA 166 Query: 181 SHLIGLGHRRIQMLSGRFNASDRAMQRYCGYLDAMQAAGLAPLPAIEVERHTLTAATDYQ 240 HL+ L R+ ++G + + + +R G+ ++ GLA L ++ + YQ Sbjct: 167 RHLLDLRRCRVACIAGP-DGLELSDERVRGFRQTLEQGGLA-LADSDLLHADFSGIGGYQ 224 Query: 241 QMM-------ADPLHRPTALFCSNDLLALSAMRDLRALGLQVPEDISVMGFDGIPVGALM 293 M AD RP A+FC ND++A+ +R L ++VP ++SV+GFD I + + Sbjct: 225 AAMRLLQGRPAD--QRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFV 282 Query: 294 QPVLASVVQPSEQIGDVALRTLVDAI 319 P L +V Q + ++G++ + L++ I Sbjct: 283 HPPLTTVAQNTRKLGNLTAQFLLERI 308 >gi|300311924|ref|YP_003776016.1| transcription repressor for pur regulon regulator protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 125 bits (314), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 108/345 (31%), Positives = 165/345 (47%), Gaps = 40/345 (11%) 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 TVGVVVPTLS----------NTVFAQCLQGIELAARALDYSVMFTTTEYLPEDESAAV-- 109 T+ V+ S +T + +Q + AA Y+++ + EDE++ V Sbjct: 63 TLACVMFNGSSYDERSERTQDTHYHNVVQTLTRAADRAGYTLL--QRNLMREDEASLVYV 120 Query: 110 -ELLLGHRVDGVILTVADAGANATLDLLERERIPFVLAYNQLADAAADADAEAATHRASV 168 +L L R+DG+I V AG N + L R P V+ A+ A H Sbjct: 121 RDLFLAGRIDGMIAMVNRAG-NPVVSELHRLGYPCVVY----------GMADPACHHVVQ 169 Query: 169 SVDNRAAACDAVSHLIGLGHRRIQMLSG--RFNASDRAMQ---------RYCGYLDAMQA 217 S +R A V HL G RRI +++G + + ++ + RY GYLD ++ Sbjct: 170 S--DRQAGLAVVEHLYRSGCRRIALVTGPQKDHQPGKSREQGVPTSSEARYFGYLDGLEK 227 Query: 218 AGLAPLPAIEVE-RHTLTAATDYQQMMADPLHRPTALFCSNDLLALSAMRDLRALGLQVP 276 GL P P V +L + + RP A+F ND +AL A++ L LG++VP Sbjct: 228 CGLTPRPEWVVTGDWSLESGYRAAAQLCHQAERPDAIFLGNDRMALGALKALYDLGVKVP 287 Query: 277 EDISVMGFDGIPVGALMQPVLASVVQPSEQIGDVALRTLVDAIER 321 +ISV+GFD + P L SV P ++ + A++ L++ IE+ Sbjct: 288 HEISVVGFDNMRYDDFSIPSLTSVDAPMLEMCEFAVKLLLERIEQ 332 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 124 bits (310), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 101/321 (31%), Positives = 155/321 (48%), Gaps = 23/321 (7%) Query: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 +++ VA LAGV+ T SR LN P +VS + +K+ ++ + G+ PN L + SR V Sbjct: 37 TLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLV 96 Query: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEDESAAVELLLGHRVDGVILT 123 VVVPT+ VF + + + A Y VM + Y E A +E ++G R DGV+LT Sbjct: 97 AVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLT 156 Query: 124 VADAGANATLDLLERERIPFVLAYNQLADAAADADAEAATHRASVSVDNRAAACDAVSHL 183 A A LL IP V ++ L D V + A + +L Sbjct: 157 GIMRSAEARKRLLA-SGIPVVETWD-LTPTPID---------MLVGFSHEAIGREVARYL 205 Query: 184 IGLGHRRIQMLSGRFNASDRAMQRYCGYLDAM-QAAGLAPLPAIEVERHTLTAATDY--- 239 G +++ ++ GR S R M + A+ G APLP H +TA T Sbjct: 206 HQRGRKKVAVVGGRDERSQRRMNAFAQECVALGMHEGRAPLPM-----HHVTAPTTLGQG 260 Query: 240 QQMMADPLH-RP--TALFCSNDLLALSAMRDLRALGLQVPEDISVMGFDGIPVGALMQPV 296 +Q +A+ L +P A+FCS+DLLAL M + ++ G+ +PE ++V+GF + +QP Sbjct: 261 RQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPR 320 Query: 297 LASVVQPSEQIGDVALRTLVD 317 L +V IG A R ++D Sbjct: 321 LTTVRIDGTGIGQRAARFIID 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 0.321 0.134 0.385 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: 1,129,998 Number of extensions: 45819 Number of successful extensions: 216 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 9 Length of query: 382 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 295 Effective length of database: 1,207,925 Effective search space: 356337875 Effective search space used: 356337875 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: 131 (55.1 bits)