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= 0024.0112.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... 741 0.0 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 417 e-117 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 108 1e-24 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 80 3e-16 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 70 3e-13 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 741 bits (1912), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/394 (94%), Positives = 387/394 (98%) Query: 1 MSEMIDTRRRHLVLAGTALAAMGAPLVARAADALKVGLIVPMSGPFASTGRQIEAAVKLY 60 MSEMI+TRRR ++LAGTAL A GAP++ARAAD LKVGLIVPMSGPFASTGRQIEAAVKLY Sbjct: 2 MSEMINTRRRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLY 61 Query: 61 QQKFGDSAAGRKVEILLKDDGGVSPDVTKRLAQELVARDKAQVLMGFGLTPLALAAAPIA 120 QQK+GDS AGRKVEI+LKDDGGVSPDVTKRLAQELV+R+KAQVLMGFGLTPLALAAAPIA Sbjct: 62 QQKYGDSVAGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIA 121 Query: 121 TQAKVPMIVTAAATSIIPQRSPYIVRTGFTLAQVTSPLASWAAKNGIKSVVTFVSDYGPG 180 TQAK PMIVTAAATSIIPQRSPYIVRTGFTLAQVT+PLASWAAKNGIKSVVTFVSDYGPG Sbjct: 122 TQAKAPMIVTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPG 181 Query: 181 LDAEKVFVKTFSEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK 240 LDAEKVFVKTF EAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK Sbjct: 182 LDAEKVFVKTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLK 241 Query: 241 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVDAMAK 300 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYV+AMAK Sbjct: 242 QFTERGLAAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVEAMAK 301 Query: 301 ANKGMRANFHSVGAYDGMHLLYESLKKTGGDADGEKLLAAMKGMSWESVRGPVSIDASTR 360 ANKGMRANFHSVGAYDGMHLLYESLKKTGGDADG+KLLAAMKGMSWESVRGPV++DA+TR 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 = 417 bits (1071), Expect = e-117, Method: Compositional matrix adjust. Identities = 205/379 (54%), Positives = 272/379 (71%), Gaps = 4/379 (1%) Query: 19 LAAMGAPL--VARAADALKVGLIVPMSGPFASTGRQIEAAVKLYQQKFGDSAAGRKVEIL 76 +AA G L +A+A + +KVGLI SGPFA G+Q+E +K Y + GD AG+K++I+ Sbjct: 12 MAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQVAGKKIQII 71 Query: 77 LKDDGGVSPDVTKRLAQELVARDKAQVLMGFGLTPLALAAAPIATQAKVPMIVTAAATSI 136 +KD G SP++ KRLAQELV R+K L GFGLTP ALA APIA QAK PMI+ AATS+ Sbjct: 72 IKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMIIMNAATSV 131 Query: 137 IPQRSPYIVRTGFTLAQVTSPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVKTFSEAGG 196 I +S YI R TL QV+ P+A+WA KNGIK VVT V+DYGPG+DAE F GG Sbjct: 132 ITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGG 191 Query: 197 KVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGA-AVLKQFTERGLAAAGIRLI 255 +V+ES+RVPLRNP++AP++QR+KDAKP+A+F+FVP+GE + A +K + ERGLA AGI++I Sbjct: 192 QVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGLAEAGIKVI 251 Query: 256 CTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVDAMAKANKGM-RANFHSVGA 314 TGD+ DD +M +G + V+++ HYSAAH S NK ++ + A AN G R NF +V A Sbjct: 252 ATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAA 311 Query: 315 YDGMHLLYESLKKTGGDADGEKLLAAMKGMSWESVRGPVSIDASTRDIVQTVYMRKAELR 374 YDGM+ +YE KK G DG++ +A +K M + S RGP++ID +TRDIVQTVY+RK E Sbjct: 312 YDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIVQTVYVRKVEKI 371 Query: 375 GAEFYNVEFDQVEKVRDPG 393 G E YNVEFD+ E ++D G Sbjct: 372 GNEAYNVEFDKFENMKDTG 390 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 101/361 (27%), Positives = 165/361 (45%), Gaps = 13/361 (3%) Query: 14 LAGTALAAM--GAPLVARAADALKVGLIVPMSGPFASTGRQIEAAVKLYQQKFGDSAAGR 71 +AG + AM GA L A+AAD +KVG + +SGP ++ G L + G+ G Sbjct: 7 VAGAVMMAMAVGASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLGNKLGGV 66 Query: 72 KVEILLKDDGGVSPDVTKRLAQELVARDKAQVLMGFGLTPLALAAAPIATQAKVPMIVTA 131 E+++ DD SPD K+ A L+ R+K +L GF + + LA AP A +K ++ Sbjct: 67 PAEVIVVDD-QFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSAN 125 Query: 132 AATSIIPQR--SPYIVRTGFTLAQVTSPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVK 189 A + + +PY + A G + V +Y G DA F K Sbjct: 126 AGPAQLAGAGCNPYFFSASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGF-K 184 Query: 190 TFSEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFTERGLAA 249 F + V + L D+A + +++ A AL+ F+P G G +KQ+ G+ Sbjct: 185 RFLKKDPAV--ELFPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNFVKQYAAAGMDP 242 Query: 250 AGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVDAMAKANKGMRANF 309 +R++ D D M G V ++ +S+ P+ N+ +V A K G + + Sbjct: 243 KIVRVMPAYDA--DQQMLSNGDLIAGVANTGQWSSDLPNEQNRAFVAAYLK-EYGRQPSM 299 Query: 310 HSVGAYDGMHLLYESLKKTGGDADG-EKLLAAMKGMSWESVRGPVSIDASTRDIVQTVYM 368 + AYD L+ ++K GG + E L+AA+K +++SVRG A+ +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 = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 109/244 (44%), Gaps = 7/244 (2%) Query: 10 RHLVLAGTALAAMGA---PLVARAADALKVGLIVPMSGPFAS-TGRQIEAAVKLYQQKFG 65 R L+ TA A +GA P A D +K+G I MSG +A G+ A+++ G Sbjct: 6 RRAALSATACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAG 65 Query: 66 DSAAGRKVEILLKDDGGVSPDVTKRLAQELVARDKAQVLMGFGLTPLALAAAPIATQAKV 125 + G+KVE++ D D+ A+E RD +L+G + +LA +A + K Sbjct: 66 GAINGKKVELVFADHQN-KADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKK 124 Query: 126 PMIVTAAATS--IIPQRSPYIVRTGFTLAQVTSPLASWAAKNGIKSVVTFVSDYGPGLDA 183 I A T+ + + Y ++ + + + + G KS +DY G Sbjct: 125 VFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSL 184 Query: 184 EKVFVKTFSEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFT 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|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 82/344 (23%), Positives = 149/344 (43%), Gaps = 11/344 (3%) Query: 23 GAPLVARAADALKVGLIVPMSGPFAST-GRQIEAAVKLYQQKFGDSAAGRKVEILLKDDG 81 GA L + DA+++G I MSGP+A T G A+++ FG + G+ +E++ D Sbjct: 22 GAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADFGGTVLGKPIEVISADHQ 81 Query: 82 GVSPDVTKRLAQELVARDKAQVLMGFGLTPLALAAAPIATQAKVPMIVTAAATSIIPQR- 140 D+ A+E +L+G + AL+ + + K I A T+ + Sbjct: 82 N-KADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYINIGAGTARLTNEE 140 Query: 141 -SPYIVRTGFTLAQVTSPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVKTFSEAGGKVM 199 +PY V + + AS K G KS V+DY G +GG V+ Sbjct: 141 CTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSLANDTSAVVKASGGTVV 200 Query: 200 ESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGAAVLKQFTERGLAAAGIRLICTGD 259 S++ P ++ D + FL + + +K Q L + + +K E G+ ++L+ Sbjct: 201 GSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEFGVTKT-MKLVGLLM 259 Query: 260 VLDDDLMAGIGAAAKDVVS-SHHYSAAHPSAANKEYVDAMAKANKGMRANFHSVGAYDGM 318 V++D G+ A +++ S ++ PS +++ + + K M + H AY Sbjct: 260 VINDIHALGLANAEGLMMTDSWYWDKDEPS---RKFAERFFQKMKKMPST-HQAAAYSAT 315 Query: 319 HLLYESLKKTGGDADGEKLLAAMKGMSWESVRGPVSIDASTRDI 362 ++++ G D D K++A +K + SI A R+I Sbjct: 316 TTYLKAVQAIGTD-DSTKVMAQLKKTRIDDFYNKGSIRADGRNI 358 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 0.132 0.373 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: 1,148,802 Number of extensions: 45452 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 195 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)