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= 0011.0322.p (337 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 680 0.0 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 167 2e-42 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 135 4e-33 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 129 5e-31 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 128 6e-31 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 680 bits (1754), Expect = 0.0, Method: Compositional matrix adjust. Identities = 337/337 (100%), Positives = 337/337 (100%) Query: 1 MATIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTG 60 MATIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTG Sbjct: 1 MATIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTG 60 Query: 61 SIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLI 120 SIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLI Sbjct: 61 SIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLI 120 Query: 121 IATLNQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVACI 180 IATLNQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVACI Sbjct: 121 IATLNQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVACI 180 Query: 181 AGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQRPD 240 AGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQRPD Sbjct: 181 AGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQRPD 240 Query: 241 AIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLT 300 AIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLT Sbjct: 241 AIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLT 300 Query: 301 AQFLLERIADPSLPARRETVAPQLQLRGSTAPRVNPT 337 AQFLLERIADPSLPARRETVAPQLQLRGSTAPRVNPT Sbjct: 301 AQFLLERIADPSLPARRETVAPQLQLRGSTAPRVNPT 337 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 167 bits (422), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 122/342 (35%), Positives = 172/342 (50%), Gaps = 15/342 (4%) Query: 1 MATIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTG 60 M T+ +VARLAGV+ TVS+VL Q V R+RVL AV +L Y P AR+L Sbjct: 1 MTTLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAP 60 Query: 61 SIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLI 120 ++ L++ + NP++ E A E G +I+CN++DDPD R YL + DG++ Sbjct: 61 TLALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVL 120 Query: 121 I--ATLNQADLNPAGKLDIPTVLLDR----APKELDIDLVSTDNAVGGSLAARHLLDLRR 174 I A L +L + P VL AP EL ++ D G++AARHLL L Sbjct: 121 IMNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPC--IAVDFFEAGAIAARHLLGLGH 178 Query: 175 CRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRP 234 A + G + ER RGF ++ G + + + GY+A M LL+ P Sbjct: 179 QCFAALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHP 238 Query: 235 ADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTR 294 + AIF ND+ A+G + A ++ + VP ++SV G DI+ A+ P LTTVA T Sbjct: 239 ---QVTAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALTTVAVPTE 295 Query: 295 KLGNLTAQFLLERIA--DPSLPARRETVAPQLQLRGSTA-PR 333 ++ + LL I PS P T APQL R STA PR Sbjct: 296 AAARMSIELLLALIERRSPS-PVMHVTAAPQLVERASTAVPR 336 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 135 bits (341), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 98/324 (30%), Positives = 166/324 (51%), Gaps = 31/324 (9%) Query: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 +IK VA LAGVS TVS +LN+ VS++ E++ ++ EL + P+ R+LR+ + ++ Sbjct: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 Query: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 G+++P +N F++ +GIE YSV+ ++ P+++ +++L DG+I Sbjct: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMI-- 121 Query: 123 TLNQADLNPAGKLD------IPTVLLDRAPKELDIDL--------VSTDNAVGGSLAARH 168 L AD + LD IP VL A +L D VS DN A H Sbjct: 122 -LTVADASANATLDLLERERIPFVL---AYNQLGTDQTAAPARASVSVDNRAAACDAVAH 177 Query: 169 LLDLRRCRVACIAGP-DGLELSDERVRGFRQTLEQGGLA-LADSDLLHADFSGIGGYQAA 226 L+ L R+ ++G + + + +R G+ + GLA +A ++ + YQ Sbjct: 178 LIGLGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQQM 237 Query: 227 MRLLQGRPAD--QRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHP 284 M AD QRP A+FC ND++A+ +R L ++VP ++SV+GFD I + + P Sbjct: 238 M-------ADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEP 290 Query: 285 PLTTVAQNTRKLGNLTAQFLLERI 308 L +V Q + ++G + + L+E I Sbjct: 291 VLASVVQPSEQIGEVALRVLVEAI 314 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 129 bits (323), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 102/338 (30%), Positives = 163/338 (48%), Gaps = 22/338 (6%) Query: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 TI DVA AGVS TVS L V +R+R+L A+ +L YVP+ A +L S + + Sbjct: 27 TIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQVV 86 Query: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 +++P+ TN F E GI D+ GY ++ + D K+ + + G +++ Sbjct: 87 AVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLS 146 Query: 123 TLNQADL---NPAGKLDIPTVLLDRAPKELDIDLVSTDNAVG------GSLAARHLLDLR 173 + Q D+ PA + IP V + D+ D +VG G ARHL + Sbjct: 147 SSQQHDILQSRPASRA-IPAV------RMFDLGRSQQDYSVGFSQTRAGHAVARHLAERG 199 Query: 174 RCRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIG-GYQAAMRLLQG 232 R A +A + R GFR+ L++ GLA AD ++L + + G Q R+LQ Sbjct: 200 YRRPAFLAAQLDPRMMKRR-EGFRKGLQEAGLA-ADIEVLLPQPTTVDMGAQLLRRVLQD 257 Query: 233 RPADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQN 292 P D++FCCND +A+G L I VP ++++ GF+D+ A P +TTV Sbjct: 258 HP---DCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTP 314 Query: 293 TRKLGNLTAQFLLERIADPSLPARRETVAPQLQLRGST 330 +G +A+ L+ ++ + R + +L +R ST Sbjct: 315 RYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 128 bits (322), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 99/317 (31%), Positives = 154/317 (48%), Gaps = 18/317 (5%) Query: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 T +DVAR AGVS+ TVS V+N VS RERV A + + Y+P+ LA L S+ T + Sbjct: 16 TKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIV 75 Query: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLII- 121 I+P ++ F+E RG+ + GY ++L ++ + + ++V + DGL++ Sbjct: 76 AAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLT 135 Query: 122 ----ATLNQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRV 177 + + + L AG + T L P ++ L DN G +L R+ Sbjct: 136 GVQHSPMTRQRLKAAGIPVVETWDLTDTPIDM---LAGFDNHAAGRAMGDYLYQKGYRRM 192 Query: 178 ACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQ 237 A + G D ++ RV G R++L G A + +H +G + A R GR Q Sbjct: 193 AFVGGDDPRGMA--RVAGLRESLRHHGAA----EPVHLVMP-MGAFLQAGREAIGRLLTQ 245 Query: 238 RP--DAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRK 295 P DA F ND++A G I VPG +++ GF ++E+A V P LTTV + + Sbjct: 246 HPEVDAAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQ 305 Query: 296 LGNLTAQFLLERI-ADP 311 +G A+ LL R DP Sbjct: 306 IGLTAAEMLLTRFDGDP 322 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 0.319 0.137 0.395 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: 1,049,719 Number of extensions: 43531 Number of successful extensions: 151 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 142 Number of HSP's successfully gapped: 8 Length of query: 337 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 251 Effective length of database: 1,212,660 Effective search space: 304377660 Effective search space used: 304377660 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)