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= 0544.0053.p (191 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_770592.1| transcriptional regulatory protein [Bradyrhizob... 126 3e-28 ref|NP_948790.1| possible transcriptional regulator, TetR family... 125 4e-28 gb|EAH89666.1| unknown [environmental sequence] 120 2e-26 ref|NP_900055.1| probable transcriptional regulator, TetR family... 113 3e-24 ref|NP_253518.1| probable transcriptional regulator [Pseudomonas... 109 3e-23 >ref|NP_770592.1| transcriptional regulatory protein [Bradyrhizobium japonicum] dbj|BAC49217.1| transcriptional regulatory protein [Bradyrhizobium japonicum USDA 110] Length = 206 Score = 126 bits (316), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 65/187 (34%), Positives = 108/187 (57%), Gaps = 5/187 (2%) Query: 1 LPYPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIE 60 + Y HK + I+ A+ R KG I + +MK AGLTHGGFY+HF+++E LVIE Sbjct: 1 MRYSREHKQETHDRIVKKASVRLREKGAHGIGVADLMKEAGLTHGGFYAHFDSREALVIE 60 Query: 61 AFHFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSE 120 AF +A+D ++E +K++ + + ++ + E YLS++HRD GC +P L EI++ S Sbjct: 61 AFAYAMDRSMEHWRKISGEVSPEKRLALIAETYLSALHRDNPGHGCSIPALGAEIARESP 120 Query: 121 EVRQAYTRELQRFMKFISDM-----AGVDASTGYALVNSMVGTVALARAVSDPKLSDDLL 175 + R+A+ +L ++ ++D A + +M GT+ LAR +LSD++L Sbjct: 121 KTRKAFAGKLDEMIEMMTDYIPSLPRKAARKQAIATLATMAGTMLLARIAGSSELSDEVL 180 Query: 176 LAGKNQA 182 AG++ A Sbjct: 181 KAGRDSA 187 >ref|NP_948790.1| possible transcriptional regulator, TetR family [Rhodopseudomonas palustris CGA009] emb|CAE28892.1| possible transcriptional regulator, TetR family [Rhodopseudomonas palustris CGA009] Length = 222 Score = 125 bits (315), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 68/186 (36%), Positives = 108/186 (58%), Gaps = 7/186 (3%) Query: 3 YPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAF 62 Y + HK + I+ A+ R KG I + +MK AGLTHGGFY+HF ++E LVIEAF Sbjct: 3 YSKEHKQETHDRIVRRASVKLREKGAHGIGVADLMKDAGLTHGGFYAHFASREALVIEAF 62 Query: 63 HFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEV 122 +A+D + E +K+A++ + ++ ++I+ YLS+ HRD GC +P L EI++ S + Sbjct: 63 SYAMDRSTERWRKLAEELPPEQRLAALIDGYLSAGHRDDPGRGCAVPALGAEIARESPKT 122 Query: 123 RQAYTRELQRFMKFISDMAGVDA------STGYALVNSMVGTVALARAVSDPKLSDDLLL 176 R+A+ +L + I+ VDA A + +M+GT+ LAR +LSD++L Sbjct: 123 RKAFAAKLDEMIAMIAAQY-VDAPPKTARKQAMATLATMMGTLVLARIAGSGELSDEILA 181 Query: 177 AGKNQA 182 G+ A Sbjct: 182 VGREAA 187 >gb|EAH89666.1| unknown [environmental sequence] Length = 192 Score = 120 bits (301), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 66/173 (38%), Positives = 99/173 (57%), Gaps = 7/173 (4%) Query: 10 KVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAFHFAIDDT 69 + R+ I+ AA+ FR+KG++ L +M AGLTHGGFY HFE+K QL+ EAF A+ Sbjct: 10 ETRQRIVEIAAQQFRSKGIQGTGLNDVMSEAGLTHGGFYRHFESKNQLLAEAFELALSSV 69 Query: 70 IELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEVRQAYTRE 129 ++ L + A K + S++ Y+S HRD GC + E+++ E R+A T Sbjct: 70 VDSLSESARKTGGKAGFASMVNSYVSRTHRDNAADGCPFAGMGSELARADELTREAATLG 129 Query: 130 LQRFMKFI-----SDMAGVDASTGYAL--VNSMVGTVALARAVSDPKLSDDLL 175 L + ++ + S AG D S A+ +++MVG + L+R VSDPK SD LL Sbjct: 130 LSKMVEALAEHIGSGEAGDDMSHPNAMFALSAMVGAITLSRIVSDPKTSDALL 182 >ref|NP_900055.1| probable transcriptional regulator, TetR family [Chromobacterium violaceum ATCC 12472] gb|AAQ58063.1| probable transcriptional regulator, TetR family [Chromobacterium violaceum ATCC 12472] Length = 189 Score = 113 bits (282), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 64/188 (34%), Positives = 102/188 (54%), Gaps = 6/188 (3%) Query: 3 YPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAF 62 YP+ HK + R+ I+ AA FR +G+ ++ + +M GLTHGGFY+HF K++LV A Sbjct: 3 YPDTHKAQTRRRIVAMAALRFRAEGLSSVGIANLMADLGLTHGGFYAHFAGKDELVAAAC 62 Query: 63 HFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEV 122 A+ + + +++ED + ++ E YLS HRD + GC L+GEIS+ V Sbjct: 63 AEALRQMADQWRSRLERSEDGGCLAALAEHYLSPAHRDFPDSGCAAAALAGEISRQDAGV 122 Query: 123 RQAYTRELQRFMKFISDMAGVDAS--TGYALVNSMVGTVALARAVSDPKLSDDLLLAGKN 180 R+++ L+ + + + D S + A + MVG + LARAV D LS L N Sbjct: 123 RRSFAAGLEPLLALLDEARLRDGSGPSPEASLALMVGALLLARAVPDAGLSQRFL----N 178 Query: 181 QAKRIIEA 188 +A+ + A Sbjct: 179 EARAALRA 186 >ref|NP_253518.1| probable transcriptional regulator [Pseudomonas aeruginosa PA01] pir||C83042 probable transcription regulator PA4831 [imported] - Pseudomonas aeruginosa (strain PAO1) gb|AAG08216.1| probable transcriptional regulator [Pseudomonas aeruginosa PAO1] Length = 186 Score = 109 bits (273), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 70/186 (37%), Positives = 98/186 (52%), Gaps = 7/186 (3%) Query: 3 YPEGHKLKVRKHIITSAAKAFRTKGVRNISLPYIMKGAGLTHGGFYSHFENKEQLVIEAF 62 YPE HK K R+ I+ AA+ FR GV L +MK GLTHGGFY+HF++K+ LV A Sbjct: 3 YPEDHKQKTRRRIVEEAARLFRQDGVGATGLQPLMKALGLTHGGFYAHFKSKDDLVETAL 62 Query: 63 HFAIDDTIELLQKVADKNEDQPQIQSVIEFYLSSVHRDQTEIGCILPTLSGEISQLSEEV 122 A E+ +A E + + +IE YLS HRD GC LPTLS E+ Q Sbjct: 63 RHAAAQLDEITAPLA---EAERPLALLIEQYLSPRHRDNPGAGCPLPTLSAELGQRGTPS 119 Query: 123 RQAYTRELQRFMKFISDMAGVDAS-TGYALVNSMVGTVALARAVSDPKLSDDLLLAGKNQ 181 + +R + + G DA L+ S+VG + L+R+V D LS +L A + Sbjct: 120 PTTDSIVRKRLAMIEAALEGEDAGERAVLLLASLVGALQLSRSVQDEALSQRILEATR-- 177 Query: 182 AKRIIE 187 K+++E Sbjct: 178 -KKLLE 182 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.318 0.134 0.371 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 253,239,067 Number of extensions: 9148348 Number of successful extensions: 27096 Number of sequences better than 1.0e-05: 61 Number of HSP's gapped: 27097 Number of HSP's successfully gapped: 61 Length of query: 191 Length of database: 757,237,578 Length adjustment: 119 Effective length of query: 72 Effective length of database: 434,140,797 Effective search space: 31258137384 Effective search space used: 31258137384 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 122 (51.6 bits)