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= 0031.0032.p (394 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC t... 792 0.0 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 423 e-119 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 108 8e-25 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 78 1e-15 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 73 4e-14 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 792 bits (2045), Expect = 0.0, Method: Compositional matrix adjust. Identities = 390/394 (98%), Positives = 391/394 (99%) Query: 1 MSEMINTRRRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLY 60 MSEMINTRRRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLY Sbjct: 2 MSEMINTRRRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLY 61 Query: 61 QQKYGDSVAGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIA 120 QQKYGDSVAGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIA Sbjct: 62 QQKYGDSVAGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIA 121 Query: 121 TQAKVPMIVTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPG 180 TQAK PMIVTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPG Sbjct: 122 TQAKAPMIVTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPG 181 Query: 181 LDAEKVFVKTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK 240 LDAEKVFVKTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK Sbjct: 182 LDAEKVFVKTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK 241 Query: 241 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAVHPSAANKEYVEAMAK 300 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSA HPSAANKEYVEAMAK Sbjct: 242 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVEAMAK 301 Query: 301 ANKGMRANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPVTIDAATR 360 ANKGMRANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPV +DAATR Sbjct: 302 ANKGMRANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPVAVDAATR 361 Query: 361 DIVQTVYMRKAELRGAEFYNVEFDQVEKVRDPGV 394 DIVQTVYMRKAELRGAEFYNVEFDQVEKVRDPGV Sbjct: 362 DIVQTVYMRKAELRGAEFYNVEFDQVEKVRDPGV 395 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 423 bits (1087), Expect = e-119, Method: Compositional matrix adjust. Identities = 209/387 (54%), Positives = 275/387 (71%), Gaps = 2/387 (0%) Query: 9 RRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSV 68 ++ +LA A G LA+A + +KVGLI SGPFA G+Q+E +K Y ++GD V Sbjct: 4 KKIALLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQV 63 Query: 69 AGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKVPMI 128 AG+K++I++KD G SP++ KRLAQELV REK L GFGLTP ALA APIA QAK PMI Sbjct: 64 AGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMI 123 Query: 129 VTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFV 188 + AATS+I +S YI R TL QV+ P+A+WA KNGIK VVT V+DYGPG+DAE F Sbjct: 124 IMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFK 183 Query: 189 KTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGA-AVLKQFTERGL 247 GG+V+ES+RVPLRNP++AP++QR+KDAKP+A+F+FVP+GE + A +K + ERGL Sbjct: 184 TNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGL 243 Query: 248 AAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAVHPSAANKEYVEAMAKANKGM-R 306 A AGI++I TGD+ DD +M +G + V+++ HYSA H S NK ++++ A AN G R Sbjct: 244 AEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGR 303 Query: 307 ANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPVTIDAATRDIVQTV 366 NF +V AYDGM+ +YE KK G DGD+ +A +K M + S RGP+ ID ATRDIVQTV Sbjct: 304 PNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIVQTV 363 Query: 367 YMRKAELRGAEFYNVEFDQVEKVRDPG 393 Y+RK E G E YNVEFD+ E ++D G Sbjct: 364 YVRKVEKIGNEAYNVEFDKFENMKDTG 390 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 108 bits (270), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 102/361 (28%), Positives = 167/361 (46%), Gaps = 15/361 (4%) Query: 12 VMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSVAGR 71 VM+A +A GA + A+AADV+KVG + +SGP ++ G L + G+ + G Sbjct: 11 VMMA----MAVGASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLGNKLGGV 66 Query: 72 KVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKVPMIVTA 131 E+++ DD SPD K+ A L+ REK +L GF + + LA AP A +K ++ Sbjct: 67 PAEVIVVDD-QFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSAN 125 Query: 132 AATSIIPQR--SPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVK 189 A + + +PY + A G + V +Y G DA F K Sbjct: 126 AGPAQLAGAGCNPYFFSASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGF-K 184 Query: 190 TFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFTERGLAA 249 F + V + L D+A + +++ A AL+ F+P G G +KQ+ G+ Sbjct: 185 RFLKKDPAV--ELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDP 242 Query: 250 AGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAVHPSAANKEYVEAMAKANKGMRANF 309 +R++ D D M G V ++ +S+ P+ N+ +V A K G + + Sbjct: 243 KIVRVMPAYDA--DQQMLSNGDLIAGVANTGQWSSDLPNEQNRAFVAAYLK-EYGRQPSM 299 Query: 310 HSVGAYDGMHLLYESLKKTGGDADG-DKLLAAMKGMSWESVRGPVTIDAATRDIVQTVYM 368 + AYD L+ ++K GG + + L+AA+K +++SVRG AA +Q Y Sbjct: 300 FASQAYDAAMLIDSAVKAVGGKVENREALIAAIKTANFKSVRGGFRF-AANHFPIQNQYA 358 Query: 369 R 369 R Sbjct: 359 R 359 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 113/244 (46%), Gaps = 7/244 (2%) Query: 10 RQVMLAGTALVAGGAPML--ARAA-DVLKVGLIVPMSGPFAS-TGRQIEAAVKLYQQKYG 65 R+ L+ TA GA +L A+AA D +K+G I MSG +A G+ A+++ G Sbjct: 6 RRAALSATACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAG 65 Query: 66 DSVAGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKV 125 ++ G+KVE+V D D+ A+E R+ +L+G + +LA +A + K Sbjct: 66 GAINGKKVELVFADHQN-KADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKK 124 Query: 126 PMIVTAAATS--IIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDA 183 I A T+ + + Y ++ + + + + G KS +DY G Sbjct: 125 VFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSL 184 Query: 184 EKVFVKTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFT 243 EK + GG V+ + RVPL D++ FL + + +K Q L + V G+ +K Sbjct: 185 EKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIKAAN 244 Query: 244 ERGL 247 E G+ Sbjct: 245 EFGV 248 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 84/321 (26%), Positives = 142/321 (44%), Gaps = 19/321 (5%) Query: 30 AADVLKVGLIVPMSGPFASTGRQIEA-AVKLYQQKYGDSVAGRKVEIVLKDDGGVSPDVT 88 + DV+K+G I +SG ++ Q A A+K+ G ++ G+K+E+++ D DV Sbjct: 27 SGDVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQN-KADVA 85 Query: 89 KRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAK-VPMIVTAAATSIIPQR-SPYIVR 146 A+E ++ +L+G + ALA+A +A + K V M + A + + + SPY V Sbjct: 86 ASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVH 145 Query: 147 TGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVKTFGEAGGKVMESVRVPL 206 + + S K G KS +DY G E +GG V+ +V+ PL Sbjct: 146 YAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPL 205 Query: 207 RNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFTERGLAA----AGIRLICTGDVLD 262 D++ FL + + +K Q + + G+ +K E G+ AG+ L+ DV Sbjct: 206 GASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGL-LVFINDVHS 264 Query: 263 DDLMAGIGAAAKDVVSSHHYSAVHPSAA-NKEYVEAMAKANKGMRANFHSVGAYDGMHLL 321 L G D S ++ A + A K Y K ++A +S L Sbjct: 265 LTLKNTEGLYLTD---SWYWDANEETRAFAKRYFAVRKKMPSSLQAADYSAA------LQ 315 Query: 322 YESLKKTGGDADGDKLLAAMK 342 Y + K G D DK++AA++ Sbjct: 316 YLKVVKEIGTDDSDKVMAALR 336 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 0.318 0.133 0.375 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: 1,195,551 Number of extensions: 49172 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 16 Length of query: 394 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 307 Effective length of database: 1,207,925 Effective search space: 370832975 Effective search space used: 370832975 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: 131 (55.1 bits)