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= 0012.0129.p (288 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309859|ref|YP_003773951.1| LysR family transcription regul... 115 5e-27 gi|300312835|ref|YP_003776927.1| LysR family transcription regul... 101 8e-23 gi|300311145|ref|YP_003775237.1| transcription regulator protein... 75 6e-15 gi|300311165|ref|YP_003775257.1| transcription regulator protein... 74 1e-14 gi|300313740|ref|YP_003777832.1| LysR family transcription regul... 70 2e-13 >gi|300309859|ref|YP_003773951.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 115 bits (287), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 79/252 (31%), Positives = 122/252 (48%), Gaps = 11/252 (4%) Query: 5 FIDPALMHMFVYLSEEGTFTGAAERMNLTQQAISAQMKRLEELTGRTLVKRSHHKVELTH 64 ++P + F + +FT A ++ LTQ +S ++RLEE GR L R H + LT Sbjct: 16 MLNPIWLQTFSTAASSASFTEAGRQLGLTQSTVSDHIRRLEESLGRRLFVRDTHSLALTA 75 Query: 65 DGDALLIAARQVVDLADRLRRQFSSMPLEGVVRLGFNPGIAPSLLFPLMSELRRTHPRLE 124 DG++LL+ AR ++ R QFS+ L G VR G + +A L +++ R HP +E Sbjct: 76 DGESLLVHARLILQAHARAEAQFSAPRLRGRVRFGTSDDLAMGPLPDMLAAFRSQHPEVE 135 Query: 125 VRCQTAPSEQLVARLQSGNLDIVLGAQRAGDLRGEVLRKERLVWVGDVDNLVKEDAPIPL 184 + + L A L G LD+++G +R+G+ RG + + W+ D LV P+PL Sbjct: 136 LEITIGLTSDLYASLDQGKLDLLVGKRRSGESRGHSMFSTPMQWLTRPDTLVDLAEPLPL 195 Query: 185 VMLPAPAFIREHIFDILGKAGLHWTVHTECDDATTMRAAILAGWGISLFNEETIADEPGF 244 ++LP P+ R LGK+G HW + AA G G++ Sbjct: 196 ILLPEPSITRAATLQALGKSGHHWRIVCTSGSHAGCMAAARGGLGLA-----------AL 244 Query: 245 PQHAHTRKLPDP 256 PQH +R L P Sbjct: 245 PQHLASRDLVPP 256 >gi|300312835|ref|YP_003776927.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 101 bits (251), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 134/285 (47%), Gaps = 6/285 (2%) Query: 4 RFIDPALMHMFVYLSEEGTFTGAAERMNLTQQAISAQMKRLEELTGRTLVKRSHHKVELT 63 + +D ++ M V +++ G F+ AAE ++ TQ A+S Q+K LE G+ L R V T Sbjct: 2 KTLDLDVLAMIVAVADTGNFSRAAELVHRTQSAVSMQIKTLELALGKPLFLRKPRSVVPT 61 Query: 64 HDGDALLIAARQVVDLADRLRRQFSSMPLEGVVRLGFNPGIAPSLLFPLMSELRRTHPRL 123 DG+ LL AR+++ L D + G V +G A SLL ++ + T+P++ Sbjct: 62 QDGEVLLTYARRMLTLRDEAWAAVVRPDVTGRVVIGVPDDYASSLLPSILKKFSATYPKV 121 Query: 124 EVRCQTAPSEQLVARLQSGNLDIVLGAQRAGDLRGEVLRKERLVW--VGDVDNLVKEDAP 181 E++ PS L ++ G +D+V A R + GE +R E +VW V +L +E P Sbjct: 122 EIQVVGLPSSALAPMVKDGTVDLVC-ATRVKGISGEFIRFEPMVWATVPSASDLWRER-P 179 Query: 182 IPLVMLPAPAFIREHIFDILGKAGLHWTVHTECDDATTMRAAILAGWGISLFNEETIADE 241 +P+ + + RE+ L KA + + E + + + AG I+ A Sbjct: 180 LPIAVFLPGSVARENAIRSLEKARIGYRTSYESPSLMGLLSMVEAGLAIAPLAR--CAVP 237 Query: 242 PGFPQHAHTRKLPDPGHIEFFLNFATGNRNESIDSMVTILRSTLR 286 P F H LPD +E L +T ++ D + + + LR Sbjct: 238 PHFTLLDHAHGLPDIAPLEVVLARSTKSKRPPCDFLAEKIMAELR 282 >gi|300311145|ref|YP_003775237.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 281 Score = 75.1 bits (183), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 60/230 (26%), Positives = 108/230 (46%), Gaps = 2/230 (0%) Query: 2 INRFIDPALMHMFVYLSEEGTFTGAAERMNLTQQAISAQMKRLEELTGRTLVKRSHHKVE 61 + + +D + FV ++ +FT AAE + TQ A+S ++K+LE+ GR L++R+ +V Sbjct: 1 MEKPLDLDAVQAFVLAADLHSFTRAAEALESTQSAVSLKLKKLEQRLGRRLLERTPRQVR 60 Query: 62 LTHDGDALLIAARQVVDLADRLRRQFSSMPLEGVVRLGFNPGIAPSLLFPLMSELRRTHP 121 L+ +G L AAR+++ +R Q P+ V G + +A + L ++++ P Sbjct: 61 LSAEGQQFLPAARELLAAHERALEQLDQGPVRFSV--GISDHVAGASLPRALAQVHALDP 118 Query: 122 RLEVRCQTAPSEQLVARLQSGNLDIVLGAQRAGDLRGEVLRKERLVWVGDVDNLVKEDAP 181 + V + A S L+ + G LD V+ + D G+++ +ER+ W D Sbjct: 119 GVVVEVRVASSHDLMPLYERGELDAVIVRREPQDRGGKLVMEERIGWFAHPDAQCWAGGA 178 Query: 182 IPLVMLPAPAFIREHIFDILGKAGLHWTVHTECDDATTMRAAILAGWGIS 231 + + IRE L AG+ W + AA+ AG +S Sbjct: 179 LRVATFSQACRIRELSLRRLDAAGIAWVEVFVGGGILAVGAAVSAGLAVS 228 >gi|300311165|ref|YP_003775257.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 73.9 bits (180), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 46/143 (32%), Positives = 74/143 (51%), Gaps = 1/143 (0%) Query: 10 LMHMFVYLSEEGTFTGAAERMNLTQQAISAQMKRLEELTGRTLVKRSHHKVELTHDGDAL 69 + FV+L+ F AER++ TQ A+S+++ LE+ G L RS +V LT DG Sbjct: 5 FLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTADGSKA 64 Query: 70 LIAARQVVDLADRLRRQFSSMPL-EGVVRLGFNPGIAPSLLFPLMSELRRTHPRLEVRCQ 128 L+ A ++V L ++ S + GV+R+G I S + L +T PRL++ Sbjct: 65 LVHAERMVKLMREMKEDMSDREVYAGVIRIGVIESIVHSWFPDFLGRLHKTFPRLQIEIV 124 Query: 129 TAPSEQLVARLQSGNLDIVLGAQ 151 + + L + GNLD+VL A+ Sbjct: 125 SDTTIHLHEQFSKGNLDLVLQAE 147 >gi|300313740|ref|YP_003777832.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 48/141 (34%), Positives = 76/141 (53%), Gaps = 2/141 (1%) Query: 11 MHMFVYLSEEGTFTGAAERMNLTQQAISAQMKRLEELTGRTLVKRSHHKVELTHDGDALL 70 + F ++EEG AAER+ TQ A++ + RLEE G L +R + LT G+ALL Sbjct: 6 LKYFTVIAEEGHVGRAAERLYKTQPALTKCIDRLEEQLGAPLFERLGRGIRLTAVGEALL 65 Query: 71 IAARQVVDLADRLRRQFSSMP--LEGVVRLGFNPGIAPSLLFPLMSELRRTHPRLEVRCQ 128 ARQ+ + D R+ EG +RLG P +A +L + +L ++ + + Sbjct: 66 NRARQISLMMDETAREIGDYAHGREGNIRLGCVPTLAEHVLPGVCQQLLGEAQKVTIDLK 125 Query: 129 TAPSEQLVARLQSGNLDIVLG 149 + ++ L+A L++G LDIVLG Sbjct: 126 VSMNDALLAGLKAGELDIVLG 146 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 0.323 0.138 0.411 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: 926,458 Number of extensions: 40665 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 34 Length of query: 288 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 204 Effective length of database: 1,222,130 Effective search space: 249314520 Effective search space used: 249314520 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)