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= 0020.0217.p (338 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 684 0.0 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 170 2e-43 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 131 9e-32 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 106 3e-24 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 104 8e-24 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 684 bits (1766), Expect = 0.0, Method: Compositional matrix adjust. Identities = 335/338 (99%), Positives = 336/338 (99%) Query: 1 MTTLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAP 60 MTTLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAP Sbjct: 1 MTTLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAP 60 Query: 61 TLALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVL 120 TLALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVL Sbjct: 61 TLALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVL 120 Query: 121 IMNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLDLGHQC 180 IMNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLL LGHQC Sbjct: 121 IMNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLGLGHQC 180 Query: 181 FAALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHPQV 240 FAALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHPQV Sbjct: 181 FAALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHPQV 240 Query: 241 TAIFASNDLPALGAMNAIADMGMNVPRDISVTGITDIQWARVSRPALTTVAVPTEAAARM 300 TAIFASNDLPALGAMNAIADMGMNVPRD+SVTGITDIQWARVSRPALTTVAVPTEAAARM Sbjct: 241 TAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALTTVAVPTEAAARM 300 Query: 301 SIELLLALIERRSPSPVMHVTAAPQLVERASTAAPRKR 338 SIELLLALIERRSPSPVMHVTAAPQLVERASTA PRKR Sbjct: 301 SIELLLALIERRSPSPVMHVTAAPQLVERASTAVPRKR 338 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 170 bits (430), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 123/342 (35%), Positives = 173/342 (50%), Gaps = 15/342 (4%) Query: 1 MTTLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAP 60 M T+ +VARLAGV+ TVS+VL Q V R+RVL AV +L Y P AR+L Sbjct: 1 MATIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTG 60 Query: 61 TLALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVL 120 ++ L++ + NP++ E A E G +I+CN++DDPD R YL + DG++ Sbjct: 61 SIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLI 120 Query: 121 IMNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPC--IAVDFFEAGAIAARHLLDLGH 178 I A L +L + P VL AP EL ++ D G++AARHLLDL Sbjct: 121 I--ATLNQADLNPAGKLDIPTVLLDR----APKELDIDLVSTDNAVGGSLAARHLLDLRR 174 Query: 179 QCFAALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHP 238 A + G + ER RGF ++ G + + + GY+A M LL+ P Sbjct: 175 CRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRP 234 Query: 239 ---QVTAIFASNDLPALGAMNAIADMGMNVPRDISVTGITDIQWARVSRPALTTVAVPTE 295 + AIF ND+ A+G + A ++ + VP ++SV G DI+ A+ P LTTVA T Sbjct: 235 ADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTR 294 Query: 296 AAARMSIELLLALIERRSPS-PVMHVTAAPQLVERASTAAPR 336 ++ + LL I PS P T APQL R ST APR Sbjct: 295 KLGNLTAQFLLERIA--DPSLPARRETVAPQLQLRGST-APR 333 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 131 bits (329), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 100/318 (31%), Positives = 159/318 (50%), Gaps = 14/318 (4%) Query: 3 TLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPTL 62 ++ +VA LAGV+ ATVS +L + G V +T +++ ++A+LG+RP+ T R L G + T+ Sbjct: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 Query: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 +VV +++N + + E AAR ++ T P+ A ++ + G DG+++ Sbjct: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILT 123 Query: 123 ----NANLPMDELRKTEQRGAPVVLC---MWEKPDAPPELPCIAVDFFEAGAIAARHLLD 175 +AN +D L E+ P VL + A P ++VD A A HL+ Sbjct: 124 VADASANATLDLL---ERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIG 180 Query: 176 LGHQCFAALVGSKKSGIHA-ERYRGFASACKEAG-HPHPTQRTRYINDTVESGYRATMEL 233 LGH+ L G + A +RY G+ A + AG P T + Y+ M Sbjct: 181 LGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEVERHTLTAAADYQQMMAD 240 Query: 234 LREHPQVTAIFASNDLPALGAMNAIADMGMNVPRDISVTGITDIQWARVSRPALTTVAVP 293 R+ P TA+F SNDL A+ AM + +GM VP DISV G I + P L +V P Sbjct: 241 PRQRP--TALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQP 298 Query: 294 TEAAARMSIELLLALIER 311 +E +++ +L+ IER Sbjct: 299 SEQIGEVALRVLVEAIER 316 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 106 bits (265), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/304 (28%), Positives = 137/304 (45%), Gaps = 4/304 (1%) Query: 3 TLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPTL 62 T +VAR AGV+ TVS V+ KV TR+RV +A +GY P+L A LA R + Sbjct: 16 TKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIV 75 Query: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 A +V +I++ + E G L++ TN + ++ G DG+++ Sbjct: 76 AAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLT 135 Query: 123 NANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLDLGHQCFA 182 ++ + G PVV W+ D P ++ D AG +L G++ A Sbjct: 136 GVQHSPMTRQRLKAAGIPVVET-WDLTDTPIDM-LAGFDNHAAGRAMGDYLYQKGYRRMA 193 Query: 183 ALVGSKKSGIHAERYRGFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREHPQVTA 242 + G G+ R G + + G P + +++G A LL +HP+V A Sbjct: 194 FVGGDDPRGM--ARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDA 251 Query: 243 IFASNDLPALGAMNAIADMGMNVPRDISVTGITDIQWARVSRPALTTVAVPTEAAARMSI 302 F SND+ A GA A G+ VP I++ G +++ A PALTTV + + Sbjct: 252 AFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAA 311 Query: 303 ELLL 306 E+LL Sbjct: 312 EMLL 315 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 104 bits (260), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 141/312 (45%), Gaps = 19/312 (6%) Query: 3 TLSEVARLAGVTSATVSNVLRQRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPTL 62 T+ +VA AGV+ TVS L+ V EQ+RQR+L+A+ +LGY P+ A LA R+ + Sbjct: 27 TIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQVV 86 Query: 63 ALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLIM 122 A++V S+ N + E G ++ T D + G L+ Sbjct: 87 AVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLS 146 Query: 123 NANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLDLGHQCFA 182 ++ + R P V M++ + + + AG ARHL + G++ Sbjct: 147 SSQQHDILQSRPASRAIPAVR-MFDLGRSQQDY-SVGFSQTRAGHAVARHLAERGYR-RP 203 Query: 183 ALVGSKKSGIHAERYRGFASACKEAG--------HPHPTQRTRYINDTVESGYRATMELL 234 A + ++ +R GF +EAG P PT TV+ G + +L Sbjct: 204 AFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPT--------TVDMGAQLLRRVL 255 Query: 235 REHPQVTAIFASNDLPALGAMNAIADMGMNVPRDISVTGITDIQWARVSRPALTTVAVPT 294 ++HP ++F ND ALGA+ G++VPR +++ G D+ WA + P++TTV P Sbjct: 256 QDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTPR 315 Query: 295 EAAARMSIELLL 306 S E+L+ Sbjct: 316 YDIGYQSAEMLV 327 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 0.132 0.386 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: 1,086,189 Number of extensions: 47146 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 8 Length of query: 338 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 252 Effective length of database: 1,212,660 Effective search space: 305590320 Effective search space used: 305590320 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)