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= 0008.0130.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 522 e-149 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 86 4e-18 gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC t... 75 5e-15 gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC t... 73 3e-14 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 68 1e-12 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 522 bits (1345), Expect = e-149, Method: Compositional matrix adjust. Identities = 260/270 (96%), Positives = 262/270 (97%) Query: 1 MMAMAAGASLSAQAADVVKVGFLTTLSGPASAPGVDEREGFMLAMKMLGNKLGGVPAEVI 60 MMAMA GASL AQAADVVKVGFLTTLSGPASAPGVDEREGFMLA+K LGNKLGGVPAEVI Sbjct: 12 MMAMAVGASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLGNKLGGVPAEVI 71 Query: 61 VVDDQFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQL 120 VVDDQFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQL Sbjct: 72 VVDDQFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQL 131 Query: 121 AGAGCNPYFFSASYQNDATHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLKKDP 180 AGAGCNPYFFSASYQNDA HEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLKKDP Sbjct: 132 AGAGCNPYFFSASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLKKDP 191 Query: 181 AVELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDPKIVRVMPAY 240 AVELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDPKIVRVMPAY Sbjct: 192 AVELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDPKIVRVMPAY 251 Query: 241 DADQQMLSNGDLIAGVANTGQWSGNHPXPQ 270 DADQQMLSNGDLIAGVANTGQWS + P Q Sbjct: 252 DADQQMLSNGDLIAGVANTGQWSSDLPNEQ 281 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 85.9 bits (211), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 84/279 (30%), Positives = 129/279 (46%), Gaps = 12/279 (4%) Query: 1 MMAMAAG--ASLSAQAADVVKVGFLTTLSGPASAPGVDEREGFMLAMKMLGNKLGGVPAE 58 +MA + G ASL AQA + +KVG + SGP + G G M G+++ G + Sbjct: 11 VMAASGGLLASL-AQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQVAGKKIQ 69 Query: 59 VIVVDDQF-SPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGP 117 +I+ D SP+ AK+ A L+ REKVD L+GF + LAVAP A +K ++ NA Sbjct: 70 IIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMIIMNAAT 129 Query: 118 AQLAGAGCNPYFFSASYQNDATHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLK 177 + + FS + + A L G +RV + +Y G DA FK L Sbjct: 130 SVITTKSNYIARFSMTLPQVSGPMATWAL--KNGIKRVVTLVADYGPGIDAETAFKTNLL 187 Query: 178 KDPAVELFP---KLGQLDFATEIAQLRAANIDALYFFLPGG-MGVNFVKQYAAAGMDPKI 233 L L +FA I +++ A +A++ F+P G + F+K Y G+ Sbjct: 188 GGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGLAEAG 247 Query: 234 VRVMPAYDA--DQQMLSNGDLIAGVANTGQWSGNHPXPQ 270 ++V+ D D M + G+ GV T +S H P+ Sbjct: 248 IKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPE 286 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 75.5 bits (184), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 75/270 (27%), Positives = 121/270 (44%), Gaps = 8/270 (2%) Query: 4 MAAGASLSAQAADVVKVGFLTTLSGPASAPGVDEREGFMLAMKMLGNKLGGVPAEVIVVD 63 +A GA + A+AADV+KVG + +SGP ++ G L + G+ + G E+++ D Sbjct: 21 VAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSVAGRKVEIVLKD 80 Query: 64 D-QFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQLAG 122 D SPD K+ A L+ REK +L GF + + LA AP A +K ++ A + + Sbjct: 81 DGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKAPMIVTAAATSIIPQ 140 Query: 123 AGCNPYFFSASYQNDATHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGF-KRFLKKDPA 181 +PY + A G + V +Y G DA F K F + Sbjct: 141 R--SPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVKTFGEAGGK 198 Query: 182 V--ELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDPKIVRVMPA 239 V + L D+A + +++ A AL+ F+P G G +KQ+ G+ +R++ Sbjct: 199 VMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFTERGLAAAGIRLICT 258 Query: 240 YDA--DQQMLSNGDLIAGVANTGQWSGNHP 267 D D M G V ++ +S HP Sbjct: 259 GDVLDDDLMAGIGAAAKDVVSSHHYSAAHP 288 >gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 413 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 64/208 (30%), Positives = 104/208 (50%), Gaps = 19/208 (9%) Query: 12 AQAADVVKVGFLTTLSGPASAPGVDEREGFMLAMKMLG--NKLGGVPAEVIVVDDQFSPD 69 + AA+ +++G + + ++A G R G LA++ + +GG P +++V +D D Sbjct: 32 SHAAEAIRIGEINSRHRLSTA-GQAYRNGLALALEQINAAGGVGGRPLQLVVREDDGDAD 90 Query: 70 AAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQLAGAGCNPYF 129 A + A LI ++ V++L+G + S++ LAV+ A +TV+V +A + N Y Sbjct: 91 QAARNARALISQDHVEVLTGSMLSDVALAVSREAARGRTVLVVGDALSDAITLDKGNRYT 150 Query: 130 F----SASYQNDATHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLKK-DPAVEL 184 F S Q E A +L +R A++APNY G+ A A FK LK+ P VE Sbjct: 151 FRVRPSTYMQAAMLAEQAARLPG----RRWAVVAPNYEYGQSAVASFKLLLKQARPDVEF 206 Query: 185 ----FPKLGQL---DFATEIAQLRAANI 205 +P LG++ D A I Q R I Sbjct: 207 VSDQWPALGKIKADDVARAIRQSRPDGI 234 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/218 (28%), Positives = 91/218 (41%), Gaps = 7/218 (3%) Query: 11 SAQAA-DVVKVGFLTTLSGP-ASAPGVDEREGFMLAMKMLGNKLGGVPAEVIVVDDQFSP 68 SAQAA D +K+GF+T +SG A G E +A+ G + G E++ D Q Sbjct: 25 SAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAGGAINGKKVELVFADHQNKA 84 Query: 69 DAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQLAGAGCNPY 128 D A A R+ VD+L G V S LA+ A K V +S AG + CN Y Sbjct: 85 DIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKVFISVGAGTTRQTNEECNAY 144 Query: 129 FFSASYQNDATHEAAGKLMADKGYQRVAIIAPNYPAG----KDASAGFKRFLKKDPAVEL 184 +Y A G + +G + + +Y G KD S K Sbjct: 145 TIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSLEKDTSEVVKSNGGNVVGATR 204 Query: 185 FPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVK 222 P L DF++ + Q +++ L + GG +N +K Sbjct: 205 VP-LATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIK 241 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 0.319 0.133 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: 902,582 Number of extensions: 38656 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 10 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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: 130 (54.7 bits)