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= 0001.2100.p (238 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311566|ref|YP_003775658.1| branched-chain amino acid ABC t... 349 1e-97 gi|300313935|ref|YP_003778027.1| branched-chain amino acid ABC t... 206 1e-54 gi|300311769|ref|YP_003775861.1| branched-chain amino acid ABC t... 205 2e-54 gi|300310995|ref|YP_003775087.1| branched-chain amino acid ABC t... 195 3e-51 gi|300313999|ref|YP_003778091.1| urea ABC transporter ATPase [He... 188 4e-49 >gi|300311566|ref|YP_003775658.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 238 Score = 349 bits (896), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 178/238 (74%), Positives = 199/238 (83%) Query: 1 MDKSDSLLRVDRLHAWYGQSHVLHGVSLEVQRGEIVSILGRNGAGRSTLLKALMGLVRSR 60 MDK+ LL V L A YG S VLHGV L VQRGEIVSILGRNGAGRSTLLKALMGL+ SR Sbjct: 1 MDKTSLLLSVTGLQAGYGHSRVLHGVDLTVQRGEIVSILGRNGAGRSTLLKALMGLLPSR 60 Query: 61 GGIDFDGDDIAGLPTHVIARRGIGYVPESRDVFPTLTVAQNLLLGRRSGRAPVHGWREEE 120 G F+G DI+GLPTH IAR G+GYVPESR+VFPTL+VAQNLLLGR+ G P GW E++ Sbjct: 61 GDCRFEGRDISGLPTHAIARLGMGYVPESREVFPTLSVAQNLLLGRKPGPQPGRGWCEDD 120 Query: 121 VYALFPALARRHKVAAGALSGGEQQMLALGRALLGNPSLLLIDEPTEGLSPQMVEQVAHY 180 ++ALFPAL +R +VAA ALSGGEQQMLALGRALLGNPSLLL+DEPTEGL+PQMVEQVA Sbjct: 121 IHALFPALYKRRQVAAAALSGGEQQMLALGRALLGNPSLLLVDEPTEGLAPQMVEQVARA 180 Query: 181 LELLRQRNVAVLLIEQKQAIALELSQRAYVMGRGEMVFHGTPAALQADQDLQREWLAL 238 L+ LR R VAVLL+EQKQA+ALELSQR YVMGRGEMVF GTP L A + +QREWLAL Sbjct: 181 LQELRTRGVAVLLVEQKQALALELSQRVYVMGRGEMVFEGTPTGLSAQETVQREWLAL 238 >gi|300313935|ref|YP_003778027.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 234 Score = 206 bits (524), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 99/233 (42%), Positives = 161/233 (69%), Gaps = 5/233 (2%) Query: 7 LLRVDRLHAWYGQSHVLHGVSLEVQRGEIVSILGRNGAGRSTLLKALMGLVRS-RGGIDF 65 +L+V+ +H +YG+SH+L GVSL+V GE+V++LGRNGAG++T LK+++G+V +G + F Sbjct: 2 ILQVEDVHGYYGKSHILQGVSLQVDAGEVVTLLGRNGAGKTTTLKSIVGVVPPVQGRVLF 61 Query: 66 DGDDIAGLPTHVIARRGIGYVPESRDVFPTLTVAQNLLLGRRSGRAPVHGWREEEVYALF 125 +G I+GLP++ IA RG+ VPE R +F LTV +NL + R A W EE+YA+F Sbjct: 62 EGQLISGLPSYKIAARGVCLVPEHRGIFKLLTVEENLTMAARKESA----WGLEEIYAIF 117 Query: 126 PALARRHKVAAGALSGGEQQMLALGRALLGNPSLLLIDEPTEGLSPQMVEQVAHYLELLR 185 P L R K G LSGGEQQMLA+ RAL+ +P +L++DEP EGL+P +V+++ + ++ Sbjct: 118 PRLKERRKNGGGQLSGGEQQMLAIARALMTHPRVLMLDEPVEGLAPVIVDEIVAQIRQIK 177 Query: 186 QRNVAVLLIEQKQAIALELSQRAYVMGRGEMVFHGTPAALQADQDLQREWLAL 238 ++++L+EQ + +L+ R Y++ +G +V+HG+ A AD+ ++ +L + Sbjct: 178 ATGMSIILVEQNLEVCTQLADRHYIVEQGRIVYHGSNAEFLADEGVKDRYLGV 230 >gi|300311769|ref|YP_003775861.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 233 Score = 205 bits (522), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 107/227 (47%), Positives = 150/227 (66%), Gaps = 1/227 (0%) Query: 4 SDSLLRVDRLHAWYGQSHVLHGVSLEVQRGEIVSILGRNGAGRSTLLKALMGLV-RSRGG 62 S LL+V LH WY +H+L G+ LE++ GE+V+++GRNGAG+ST LKALMGL+ R +G Sbjct: 2 SQCLLQVQGLHGWYADAHILFGLDLEIRAGEVVALMGRNGAGKSTTLKALMGLLERRQGQ 61 Query: 63 IDFDGDDIAGLPTHVIARRGIGYVPESRDVFPTLTVAQNLLLGRRSGRAPVHGWREEEVY 122 I G DI L H AR G+GYVPE R +F L+V +NL GR+ R W + ++ Sbjct: 62 IRLAGRDIGKLAPHQRARLGLGYVPEDRRIFTELSVLENLETGRQPPRPGAPHWTPQALF 121 Query: 123 ALFPALARRHKVAAGALSGGEQQMLALGRALLGNPSLLLIDEPTEGLSPQMVEQVAHYLE 182 LFP L + G +SGGEQQML + R L+GNP LLL+DEP+EG++P +VEQ+A ++ Sbjct: 122 ELFPNLGAMPQRLGGRMSGGEQQMLTIARTLMGNPRLLLLDEPSEGVAPVIVEQMAAMIQ 181 Query: 183 LLRQRNVAVLLIEQKQAIALELSQRAYVMGRGEMVFHGTPAALQADQ 229 L++ +A+LL EQ A + R Y++ +G +V GTPA+LQA Q Sbjct: 182 ELKRSGIAILLCEQNLHFASLVCDRGYLLDQGRIVAAGTPASLQAHQ 228 >gi|300310995|ref|YP_003775087.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 235 Score = 195 bits (496), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 108/233 (46%), Positives = 147/233 (63%), Gaps = 5/233 (2%) Query: 7 LLRVDRLHAWYGQSHVLHGVSLEVQRGEIVSILGRNGAGRSTLLKALMGLVR-SRGGIDF 65 +L+ D++H YG LHGVSL V++GEIV+++G NGAG++TLL L G R S G + F Sbjct: 2 MLQFDKVHTHYGAIEALHGVSLNVEKGEIVTLIGANGAGKTTLLMTLCGRPRASSGRVIF 61 Query: 66 DGDDIAGLPTHVIARRGIGYVPESRDVFPTLTVAQNLLLGR--RSGRAPVHGWREEEVYA 123 +G DI L TH I RRG+ PE R VFP+LTV +NL +G S A G E V+ Sbjct: 62 EGQDITQLQTHEIMRRGLAISPEGRRVFPSLTVLENLKMGAFFASNEAIEQGI--EYVFG 119 Query: 124 LFPALARRHKVAAGALSGGEQQMLALGRALLGNPSLLLIDEPTEGLSPQMVEQVAHYLEL 183 LFP L R AG +SGGEQQMLA+GRAL+ P LLL+DEPT GL+P ++ Q+ + Sbjct: 120 LFPRLKERAAQRAGTMSGGEQQMLAIGRALMSKPRLLLLDEPTLGLAPLVIAQIFDIIRT 179 Query: 184 LRQRNVAVLLIEQKQAIALELSQRAYVMGRGEMVFHGTPAALQADQDLQREWL 236 +R+ V V L+EQ AL ++ R YV+ G +V T A L A+ D+++ +L Sbjct: 180 IRESGVTVFLVEQNANKALGVADRGYVLENGHVVMSDTGANLLANSDVRKAYL 232 >gi|300313999|ref|YP_003778091.1| urea ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 232 Score = 188 bits (477), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 101/221 (45%), Positives = 145/221 (65%), Gaps = 10/221 (4%) Query: 7 LLRVDRLHAWYGQSHVLHGVSLEVQRGEIVSILGRNGAGRSTLLKALMGLVR-SRGGIDF 65 +L+V+ L+ +YG +H L GVSL+VQ+G+++S+LGRNG G++TLLK LMG++ ++G + F Sbjct: 1 MLQVNELNQYYGAAHTLRGVSLDVQKGKVLSLLGRNGVGKTTLLKCLMGVLPVAKGNVMF 60 Query: 66 DGDDIAGLPTHVIARRGIGYVPESRDVFPTLTVAQNLLLGRRSGRAPVHGWREE----EV 121 +G DI L H A+ GI YVP+ R++F LTV +N+L+G A + G R EV Sbjct: 61 EGHDITKLKPHQRAKLGIAYVPQGREIFARLTVEENMLMGM----ATLSGRRASSIKGEV 116 Query: 122 YALFPALARRHKVAAGALSGGEQQMLALGRALLGNPSLLLIDEPTEGLSPQMVEQVAHYL 181 Y LFP L G LSGG+QQ LA+ RALL P L+++DEPTEG+ P +++ + + Sbjct: 117 YELFPVLKEMLHRRGGDLSGGQQQQLAIARALLAEPKLIILDEPTEGIQPSIIKDIGRVI 176 Query: 182 ELLRQR-NVAVLLIEQKQAIALELSQRAYVMGRGEMVFHGT 221 LLRQR ++ +LL EQ A EL+ VM RGE+V GT Sbjct: 177 SLLRQRGDIGILLCEQYFDFARELADTFVVMSRGEVVAAGT 217 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 0.321 0.138 0.400 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: 755,952 Number of extensions: 31311 Number of successful extensions: 516 Number of sequences better than 1.0e-08: 128 Number of HSP's gapped: 312 Number of HSP's successfully gapped: 141 Length of query: 238 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 156 Effective length of database: 1,231,600 Effective search space: 192129600 Effective search space used: 192129600 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: 129 (54.3 bits)