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= 0038.0026.p (349 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 569 e-163 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 249 3e-67 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 219 2e-58 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 132 3e-32 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 126 2e-30 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 569 bits (1467), Expect = e-163, Method: Compositional matrix adjust. Identities = 275/341 (80%), Positives = 302/341 (88%) Query: 9 KPAKAAKGSRATGRVTIVDVAAEARVSPMTVSRALKSPELVQQEARDRIAAAIRKLGYVP 68 K A +GSRATGRVTI+DVAAEA VSPMTVSRALK+P LVQ+++R RI AI KLGYVP Sbjct: 12 KSPPAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVP 71 Query: 69 NQAASTLASARSQVIGVLVPSLTNAVFIETLSGIRDYLSQAGYQFLIGETGYSKEKESRL 128 NQAA+TLASARSQV+ VLVPSLTNAVFIETLSGIRDYL+ GYQFLIGETGY + KE L Sbjct: 72 NQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEEL 131 Query: 129 ISTYLAHAPDGFLLSSSDQHDILRRQLAASNIPAVRMFDLGKSNSDMSVGFSQTKAGYAA 188 I+TYLAHAP GFLLSSS QHDIL+ + A+ IPAVRMFDLG+S D SVGFSQT+AG+A Sbjct: 132 IATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAV 191 Query: 189 ARHLIERGYRRPAFLAAQLDPRMMKRREGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLL 248 ARHL ERGYRRPAFLAAQLDPRMMKRREGFRKGL EAGL D+EVLLP PTTVDMGAQLL Sbjct: 192 ARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVDMGAQLL 251 Query: 249 ARVLEIAPDCDAVFCCNDDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTI 308 RVL+ PDCD+VFCCNDDLALGALFECQR+GI VP+QMAIAGFNDLSWAACATPSITT+ Sbjct: 252 RRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTV 311 Query: 309 VTPRYDIGYKAAEMLIRQLKGEPVEKARLDLGFELAVREST 349 VTPRYDIGY++AEML+RQLKGE + K RLDLGFELAVREST Sbjct: 312 VTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 249 bits (635), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 134/341 (39%), Positives = 200/341 (58%), Gaps = 4/341 (1%) Query: 9 KPAKAAKGSRATGRVTIVDVAAEARVSPMTVSRALKSPELVQQEARDRIAAAIRKLGYVP 68 KP A +RA VT DVA A VS +TVSR + SPE V R+R+ A I +GY+P Sbjct: 4 KPEPPAMPTRA---VTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIP 60 Query: 69 NQAASTLASARSQVIGVLVPSLTNAVFIETLSGIRDYLSQAGYQFLIGETGYSKEKESRL 128 N A LAS R++++ +VP++++++F ETL G+ + L GYQ L+G+T YS+E E+ L Sbjct: 61 NLLAGGLASRRTRIVAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGL 120 Query: 129 ISTYLAHAPDGFLLSSSDQHDILRRQLAASNIPAVRMFDLGKSNSDMSVGFSQTKAGYAA 188 + ++ DG +L+ + R++L A+ IP V +DL + DM GF AG A Sbjct: 121 VEVFIGRRVDGLVLTGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAM 180 Query: 189 ARHLIERGYRRPAFLAAQLDPRMMKRREGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLL 248 +L ++GYRR AF+ DPR M R G R+ L G V +++P + G + + Sbjct: 181 GDYLYQKGYRRMAFVGGD-DPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAI 239 Query: 249 ARVLEIAPDCDAVFCCNDDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTI 308 R+L P+ DA F ND +A GA EC RRGI VP ++A+AGF +L A P++TT+ Sbjct: 240 GRLLTQHPEVDAAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTV 299 Query: 309 VTPRYDIGYKAAEMLIRQLKGEPVEKARLDLGFELAVREST 349 + IG AAEML+ + G+P+++A DLG+ + R+ST Sbjct: 300 QISAHQIGLTAAEMLLTRFDGDPLDQAVHDLGYSILERDST 340 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 128/340 (37%), Positives = 195/340 (57%), Gaps = 8/340 (2%) Query: 15 KGSRAT-GRVTIVDVAAEARVSPMTVSRALKSPELVQQEARDRIAAAIRKLGYVPNQAAS 73 +GSR + G VT+ DVA A V+P+T SRAL +P V + ++ A+ K GYVPN A Sbjct: 27 RGSRKSAGGVTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAG 86 Query: 74 TLASARSQVIGVLVPSLTNAVFIETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYL 133 LAS +S+++ V+VP++ VF E + + + L+ AGYQ ++G++GY +E L+ + Sbjct: 87 GLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAII 146 Query: 134 AHAPDGFLLSSSDQHDILRRQLAASNIPAVRMFDLGKSNSDMSVGFSQTKAGYAAARHLI 193 PDG +L+ + R++L AS IP V +DL + DM VGFS G AR+L Sbjct: 147 GRRPDGVVLTGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREVARYLH 206 Query: 194 ERGYRRPAFLAAQLDPRMMKRREGFRK-----GLSEAGLDPDVEVLLPAPTTVDMGAQLL 248 +RG ++ A + + D R +R F + G+ E G P + APTT+ G Q L Sbjct: 207 QRGRKKVAVVGGR-DERSQRRMNAFAQECVALGMHE-GRAPLPMHHVTAPTTLGQGRQGL 264 Query: 249 ARVLEIAPDCDAVFCCNDDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTI 308 A +L+ PD DA+FC +D LALG + E Q RGI +P+Q+A+ GF DL ++ P +TT+ Sbjct: 265 AELLQAQPDLDAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRLTTV 324 Query: 309 VTPRYDIGYKAAEMLIRQLKGEPVEKARLDLGFELAVRES 348 IG +AA +I + G V + +D+GF + R+S Sbjct: 325 RIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSIIARDS 364 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 102/336 (30%), Positives = 164/336 (48%), Gaps = 18/336 (5%) Query: 24 TIVDVAAEARVSPMTVSRALKSPELVQQEARDRIAAAIRKLGYVPNQAASTLASARSQVI 83 TI DVA A VS TVS L V +AR+R+ AA+++L YVP+ A +L S + I Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 84 GVLVPSLTNAVFIETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLS 143 G+++P+ TN F E GI D+ AGY ++ + +K+ + DG +++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 144 SSDQHDILRRQLAASNIPAV------RMFDLGKSNSDMSVGFSQTKAGYAAARHLIERGY 197 + +Q D+ +IP V + D+ ++D +VG G AARHL++ Sbjct: 123 TLNQADL--NPAGKLDIPTVLLDRAPKELDIDLVSTDNAVG------GSLAARHLLDLRR 174 Query: 198 RRPAFLAAQLDPRMMKRR-EGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAP 256 R A +A + R GFR+ L + GL LL A + G Q R+L+ P Sbjct: 175 CRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRP 234 Query: 257 ---DCDAVFCCNDDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRY 313 DA+FCCND +A+G L I+VP ++++ GF+D+ A P +TT+ Sbjct: 235 ADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTR 294 Query: 314 DIGYKAAEMLIRQLKGEPVEKARLDLGFELAVREST 349 +G A+ L+ ++ + R + +L +R ST Sbjct: 295 KLGNLTAQFLLERIADPSLPARRETVAPQLQLRGST 330 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 126 bits (317), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 97/319 (30%), Positives = 152/319 (47%), Gaps = 17/319 (5%) Query: 22 RVTIVDVAAEARVSPMTVSRALKSPELVQQEARDRIAAAIRKLGYVPNQAASTLASARSQ 81 R +I VA A VS TVSR L P V E ++I +I +LG+ PN L + S+ Sbjct: 2 RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSR 61 Query: 82 VIGVLVPSLTNAVFIETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFL 141 +GV+VP+L+N VF + L GI Y + T Y E+E+ + L H DG + Sbjct: 62 TVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMI 121 Query: 142 LSSSDQH-----DILRRQLAASNIPAVRMFD-LGKSNS----DMSVGFSQTKAGYAAARH 191 L+ +D D+L R+ IP V ++ LG + SV A A H Sbjct: 122 LTVADASANATLDLLERE----RIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAH 177 Query: 192 LIERGYRRPAFLAAQLDP--RMMKRREGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLA 249 LI G+RR L+ + + R M+R G+ + AGL P + V+ T+ A Sbjct: 178 LIGLGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAP-MAVIEVERHTLTAAADYQQ 236 Query: 250 RVLEIAPDCDAVFCCNDDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTIV 309 + + A+FC ND LA+ A+ + + G+KVP +++ GF+ + A P + ++V Sbjct: 237 MMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVV 296 Query: 310 TPRYDIGYKAAEMLIRQLK 328 P IG A +L+ ++ Sbjct: 297 QPSEQIGEVALRVLVEAIE 315 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 0.134 0.378 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: 1,017,517 Number of extensions: 41694 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 8 Length of query: 349 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 263 Effective length of database: 1,212,660 Effective search space: 318929580 Effective search space used: 318929580 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)