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= 0025.0217.p (189 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... 104 4e-24 gi|300311924|ref|YP_003776016.1| transcription repressor for pur... 89 2e-19 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 80 9e-17 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 71 5e-14 gi|300310825|ref|YP_003774917.1| LacI family transcription regul... 67 1e-12 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 104 bits (260), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 68/156 (43%), Positives = 92/156 (58%), Gaps = 11/156 (7%) Query: 15 VGIDNRRAAADAVGHLLSRGHRRI----GLINSDERYSYARQRQLGYMDALAGADLDARP 70 V +DNR AA DAV HL+ GHRRI G N+ +R A QR GY+DA+ A L P Sbjct: 163 VSVDNRAAACDAVAHLIGLGHRRIQMLSGRFNASDR---AMQRYYGYLDAMRAAGLA--P 217 Query: 71 QWRRTVQSLDYEAGAAAALEMMAQP-DAPTAIFAVSDTLAIGVLSGLRQLGKRVPEDVAV 129 V+ A AA +MMA P PTA+F +D LA+ + LR LG +VP D++V Sbjct: 218 MAVIEVERHTLTA-AADYQQMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISV 276 Query: 130 IGFDDIAVAAQIDPGLSTVAQPMRALGETAARLLLQ 165 +GFD I V A ++P L++V QP +GE A R+L++ Sbjct: 277 MGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVE 312 >gi|300311924|ref|YP_003776016.1| transcription repressor for pur regulon regulator protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 89.0 bits (219), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 60/177 (33%), Positives = 89/177 (50%), Gaps = 15/177 (8%) Query: 7 DPAMPVPYVGIDNRRAAADAVGHLLSRGHRRIGLIN---SDERYSYARQ---------RQ 54 DPA +V +R+A V HL G RRI L+ D + +R+ R Sbjct: 161 DPA--CHHVVQSDRQAGLAVVEHLYRSGCRRIALVTGPQKDHQPGKSREQGVPTSSEARY 218 Query: 55 LGYMDALAGADLDARPQWRRTVQSLDYEAGAAAALEMMAQPDAPTAIFAVSDTLAIGVLS 114 GY+D L L RP+W T E+G AA ++ Q + P AIF +D +A+G L Sbjct: 219 FGYLDGLEKCGLTPRPEWVVT-GDWSLESGYRAAAQLCHQAERPDAIFLGNDRMALGALK 277 Query: 115 GLRQLGKRVPEDVAVIGFDDIAVAAQIDPGLSTVAQPMRALGETAARLLLQRLADPQ 171 L LG +VP +++V+GFD++ P L++V PM + E A +LLL+R+ Q Sbjct: 278 ALYDLGVKVPHEISVVGFDNMRYDDFSIPSLTSVDAPMLEMCEFAVKLLLERIEQRQ 334 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 80.5 bits (197), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 69/192 (35%), Positives = 93/192 (48%), Gaps = 22/192 (11%) Query: 10 MPVPYVGIDNRRAAADAVGHLLSRGHRRI-------GLINSDERYSYARQRQLGYMDALA 62 + + V DN + A HLL R+ GL SDER RQ ALA Sbjct: 149 LDIDLVSTDNAVGGSLAARHLLDLRRCRVACIAGPDGLELSDERVRGFRQTLEQGGLALA 208 Query: 63 GADLDARPQWRRTVQSLDYEA--GAAAALEMMAQPDA---PTAIFAVSDTLAIGVLSGLR 117 +DL D+ G AA+ ++ A P AIF +D +AIGVL Sbjct: 209 DSDL----------LHADFSGIGGYQAAMRLLQGRPADQRPDAIFCCNDMMAIGVLRAAG 258 Query: 118 QLGKRVPEDVAVIGFDDIAVAAQIDPGLSTVAQPMRALGETAARLLLQRLADPQIAVPGV 177 +L VP +++V+GFDDI +A + P L+TVAQ R LG A+ LL+R+ADP + Sbjct: 259 ELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLTAQFLLERIADPSLPARRE 318 Query: 178 LLDHQLVLRGST 189 + QL LRGST Sbjct: 319 TVAPQLQLRGST 330 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 71.2 bits (173), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 61/195 (31%), Positives = 87/195 (44%), Gaps = 10/195 (5%) Query: 1 VACCEFDPAMP--VPYVGIDNRRAAADAVGHLLSRGHRRIGLINSDERYSYARQRQLGYM 58 V C P P +P + +D A A A HLL GH+ + ++ +R G+ Sbjct: 142 VLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLGLGHQCFAALVGSKKSGIHAERYRGFA 201 Query: 59 DALAGADLDARPQWRRTVQSLDYEAGAAAALEMMAQPDAPTAIFAVSDTLAIGVLSGLRQ 118 A A P R + E+G A +E++ + TAIFA +D A+G ++ + Sbjct: 202 SACKEAG-HPHPTQRTRYINDTVESGYRATMELLREHPQVTAIFASNDLPALGAMNAIAD 260 Query: 119 LGKRVPEDVAVIGFDDIAVAAQIDPGLSTVAQPMRALGETAARLLL----QRLADPQIAV 174 +G VP DV+V G DI A P L+TVA P A + LLL +R P + V Sbjct: 261 MGMNVPRDVSVTGITDIQWARVSRPALTTVAVPTEAAARMSIELLLALIERRSPSPVMHV 320 Query: 175 PGVLLDHQLVLRGST 189 QLV R ST Sbjct: 321 TAA---PQLVERAST 332 >gi|300310825|ref|YP_003774917.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 382 Score = 67.0 bits (162), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/195 (29%), Positives = 99/195 (50%), Gaps = 16/195 (8%) Query: 1 VACCEFDPAMPVPYVGIDNRRAAADAVGHLLSRGHRRIGLINSDERYSYARQ-RQLGYMD 59 V C+FD VG+DN +AA A HLL++G+ I L+ +RQ RQ G++ Sbjct: 175 VEGCDFD------LVGLDNVKAAQLATRHLLAQGYTDIALVVQSLYGVSSRQGRQAGFLQ 228 Query: 60 ALAGADLDARPQWRRTVQSLDYEAGAAAAL--EMM---AQPDAPTAIFAVSDTLAIGVLS 114 A++ + R +T++ + G A + E A+ A+ A + +++ + Sbjct: 229 AMS----ERRDCHGQTLEVDVEQPGHVATVLREFFLRRARSGGRVALLAGNGMVSLQIAL 284 Query: 115 GLRQLGKRVPEDVAVIGFDDIAVAAQIDPGLSTVAQPMRALGETAARLLLQRLADPQIAV 174 L+ + P+DV ++ FD++A + + G+ST+ QP +G TA LL R+ + Sbjct: 285 ALQSMKLSFPDDVGLLCFDELAWSPLVGSGISTIEQPTYEIGFTAIERLLVRIQGERSVR 344 Query: 175 PGVLLDHQLVLRGST 189 +LLD +L+ RGST Sbjct: 345 MEMLLDGRLISRGST 359 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 0.322 0.136 0.397 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: 607,414 Number of extensions: 24407 Number of successful extensions: 111 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 10 Length of query: 189 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 109 Effective length of database: 1,241,070 Effective search space: 135276630 Effective search space used: 135276630 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: 128 (53.9 bits)