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= 0001.2158.p (404 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 748 0.0 gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC t... 342 4e-95 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 91 1e-19 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 85 1e-17 gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC t... 71 2e-13 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 748 bits (1931), Expect = 0.0, Method: Compositional matrix adjust. Identities = 361/404 (89%), Positives = 387/404 (95%) Query: 1 VNHFNFQRGLLWAGVATILNFSSGIALAQDSIKIGEINSYKAQPAFLEPYRRGWEMALDE 60 +N FNFQRGL WA A +L S A AQD+I+IGEINSYKAQPAFLEPYRRGWEMALDE Sbjct: 1 MNQFNFQRGLRWALAAALLTMGSVAARAQDTIRIGEINSYKAQPAFLEPYRRGWEMALDE 60 Query: 61 VNAAGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQ 120 +NA+GGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQ Sbjct: 61 INASGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQ 120 Query: 121 HKVFFLAAEPLTDKIVWQNGNKYTYRLRPSTTMLVAAVVKEAVKLKKKRWAIVYPNYEYG 180 H+VFFLAAEPLTDKIVWQNGNKYTYRLRPST+MLVA+VVKEAVKLKKKRWAIVYPNYEYG Sbjct: 121 HRVFFLAAEPLTDKIVWQNGNKYTYRLRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYG 180 Query: 181 QSAVASFKAMMKQAQPDIEFVAEQAPPLGKIDAGAVTQALADAKPEAIFNALFAADLGKF 240 QSAVASFK +MKQAQPD+EFVAEQAPPLGKIDAGAVTQALADAKP+AIFNALFAADLGKF Sbjct: 181 QSAVASFKTLMKQAQPDVEFVAEQAPPLGKIDAGAVTQALADAKPDAIFNALFAADLGKF 240 Query: 241 VREGNTRGLFDNVEVVSLLTGEPEYLDPLKSEAPQNWIVTGYPWYAINTPEHKKFVEAYR 300 VREGNTRGLF+ V+VVSLLTGEPEYLDPLK EAPQNWIVTGYPWYAI+TPEHKKFVEAYR Sbjct: 241 VREGNTRGLFEQVDVVSLLTGEPEYLDPLKGEAPQNWIVTGYPWYAIHTPEHKKFVEAYR 300 Query: 301 KKYNDYPRNGSLVGYSALMSIAAGIKKAGSTDADKLSAAFSGLKVDTPVASIVYRPQDHQ 360 KK+NDYPRNGSLVGYSALMSIAAG++KAGSTDAD+L+AAFSGLKV+TPVASIVYRPQDHQ Sbjct: 301 KKFNDYPRNGSLVGYSALMSIAAGLRKAGSTDADRLAAAFSGLKVETPVASIVYRPQDHQ 360 Query: 361 STLGAFVGRTGLKDGKGIMTSFTYVDGATLQLPDAEVRKLRPAD 404 STLGAFVGRTGLK+G+G+MTSFTY+DGA LQLPDAEV+KLR D Sbjct: 361 STLGAFVGRTGLKEGRGVMTSFTYIDGAALQLPDAEVKKLRAPD 404 >gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 413 Score = 342 bits (876), Expect = 4e-95, Method: Compositional matrix adjust. Identities = 165/380 (43%), Positives = 252/380 (66%) Query: 24 GIALAQDSIKIGEINSYKAQPAFLEPYRRGWEMALDEVNAAGGVLGKKLEVIARDDNGNP 83 G + A ++I+IGEINS + YR G +AL+++NAAGGV G+ L+++ R+D+G+ Sbjct: 30 GPSHAAEAIRIGEINSRHRLSTAGQAYRNGLALALEQINAAGGVGGRPLQLVVREDDGDA 89 Query: 84 GDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQHKVFFLAAEPLTDKIVWQNGNKY 143 + R A L++++ V +L G LS+ LA++ A + + + + L+D I GN+Y Sbjct: 90 DQAARNARALISQDHVEVLTGSMLSDVALAVSREAARGRTVLVVGDALSDAITLDKGNRY 149 Query: 144 TYRLRPSTTMLVAAVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKAMMKQAQPDIEFVAE 203 T+R+RPST M A + ++A +L +RWA+V PNYEYGQSAVASFK ++KQA+PD+EFV++ Sbjct: 150 TFRVRPSTYMQAAMLAEQAARLPGRRWAVVAPNYEYGQSAVASFKLLLKQARPDVEFVSD 209 Query: 204 QAPPLGKIDAGAVTQALADAKPEAIFNALFAADLGKFVREGNTRGLFDNVEVVSLLTGEP 263 Q P LGKI A V +A+ ++P+ IFNA F DL KFV+ GN + LF+ V VVS+ + Sbjct: 210 QWPALGKIKADDVARAIRQSRPDGIFNATFGEDLQKFVQAGNRQQLFEGVRVVSMASAGA 269 Query: 264 EYLDPLKSEAPQNWIVTGYPWYAINTPEHKKFVEAYRKKYNDYPRNGSLVGYSALMSIAA 323 LDP +SEA ++W+ GYPW ++ PEH++F+EAY K++++ P+ ++ GY+ +M+IAA Sbjct: 270 PSLDPSQSEAIRDWLAIGYPWDQVSLPEHQRFLEAYLKRFSERPQLSAVFGYTTMMAIAA 329 Query: 324 GIKKAGSTDADKLSAAFSGLKVDTPVASIVYRPQDHQSTLGAFVGRTGLKDGKGIMTSFT 383 G+KK+ D + L A GL+ +P+ + +R D Q++LGAFVG KDG+ M + Sbjct: 330 GLKKSEGGDGEVLVEAMRGLQFGSPLGPVSFRALDQQASLGAFVGLVSQKDGRSSMRDWR 389 Query: 384 YVDGATLQLPDAEVRKLRPA 403 Y+DGA P A VR RPA Sbjct: 390 YLDGAAYLPPPAYVRSRRPA 409 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 91.3 bits (225), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 82/313 (26%), Positives = 139/313 (44%), Gaps = 15/313 (4%) Query: 51 RRGWEMALDEVNAAGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNT 110 + G+ +A +E+NA GGV G KL ++ D+ G +++ V ++L+ +++V +FG LSN+ Sbjct: 48 KNGFTLASEEINAKGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNS 107 Query: 111 GLALTDYAKQHKVFFLAAEPLTDKIVWQNGNKYTYRLRPSTTMLVAAVVKEAVK-LKKKR 169 A A KV D I +T+R ++ VK AVK K+ Sbjct: 108 AFAADPIANAAKVVVFGTSNTADGITAM--GPFTFRNSVMEADVLPVTVKAAVKHFGIKK 165 Query: 170 WAIVYPNYE-YGQSAVASFKAMMKQAQPDIEFVAEQAPPLGKIDAGAVTQALADAKPEAI 228 A++Y N + + +S FKA ++ + I +A G +D A + P+AI Sbjct: 166 VAVIYGNDDAFTKSGYDVFKATLEHQK--IPVTTTEAYAKGDVDFKAQLTKIKAGNPDAI 223 Query: 229 FNALFAADLGKFVREGNTRGLFDNVEVVSLLTGEPEYLDPLKSEAPQNWIVTGYPWYAIN 288 + A + + + TR L + L + +A N ++ G PW A N Sbjct: 224 VCSCLAEEAANIILQ--TRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLM-GSPWSAEN 280 Query: 289 -TPEHKKFVEAYRKKYNDYPRNGSLVGYSALMSIAAGIKKAG-----STDADKLSAAFSG 342 TP +K F+ AY+ K+ P + Y A+ +A +K + D D L AA Sbjct: 281 QTPANKAFITAYKAKFGADPDQFAAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPA 340 Query: 343 LKVDTPVASIVYR 355 +K+D +R Sbjct: 341 VKIDGATGKFAFR 353 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 85.1 bits (209), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 85/313 (27%), Positives = 138/313 (44%), Gaps = 15/313 (4%) Query: 53 GWEMALDEVNAAGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLF-GGFLSNTG 111 G ++AL + G VLGK + D G P +VR +E + E+ F GG LS Sbjct: 53 GMKLALQKY---GKVLGKSTSYVNLDTEGKPATAVRKMQESI--EKGTRFFAGGILSGEA 107 Query: 112 LALTDYAKQHKVFFLAAEPLTDKIVWQNGNKYTYRLRPSTTMLVAAVVKEAVKL--KKKR 169 LA+ A + F+ D+I + N+ T+R T + V+ ++ KR Sbjct: 108 LAMGKEADKAGAVFITTAG-ADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKR 166 Query: 170 WAIVYPNYEYGQSAVASFKAMMKQAQPDIEFVAEQAPPLGKID-AGAVTQALADAKPEAI 228 W + P Y +G+ +++ K + K+ IE V L + + +G +T A+A AKP+ + Sbjct: 167 WYTITPQYVFGEGLLSAAKNIFKE--KGIEHVGNSYHSLTEKEFSGYLTNAIA-AKPDVL 223 Query: 229 FNALFAADLGKFVREGNTRGLFDNVEVVSLLTGEPEYLDPLKSEAPQNWIVTGYPWYAIN 288 F + +R+ + G+ +N ++ E + L ++ W+AI+ Sbjct: 224 LLLNFGSQSSDTLRQAVSFGMKNNCTILMAWASGLEQFETLGADICDGVYFGAQYWHAID 283 Query: 289 TPEHKKFVEAYRKKYNDYPRNGSLVG-YSALMSIAAGIKKAGSTDADKLSAAFSGLKVDT 347 P +K+FV+ P N SL G Y I I KA STD + AA G+K + Sbjct: 284 APFNKEFVKLVNDNLKIDP-NYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEG 342 Query: 348 PVASIVYRPQDHQ 360 S R DHQ Sbjct: 343 LTGSEEIRKGDHQ 355 >gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 418 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 76/349 (21%), Positives = 162/349 (46%), Gaps = 21/349 (6%) Query: 22 SSGIALAQDSIKIGEINSYKAQPAFLEPYR-RGWEMALDEVNAAGGVLGKKLEVIARDDN 80 ++ +A+ + +G+++S A E + +A+D++NA GG+LG+K+++I D Sbjct: 46 TTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQINAMGGILGRKIKIIQEDGA 105 Query: 81 GNPGDSVRVAEELMARERVALLFGGFLSNTGLA-LTDYAKQHKVFFLAAEPLTDKIVWQN 139 + A++L+ +RVA +FG + S + A L + K + + + P + + Q+ Sbjct: 106 SDWPTFAEKAKKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLLYY---PTFYEGLEQS 162 Query: 140 GNKYTYRLRPSTTMLVAAVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKAMMKQAQPDIE 199 N + Y + +T ++A + A + K K + +V +Y + +++ K A+ IE Sbjct: 163 KNVF-YTGQEATQQVLAGLNWVAKEKKAKTFFLVGSDYIWPRTS-------NKIARKHIE 214 Query: 200 ------FVAEQAPPLGKIDAGAVTQALADAKPEAIFNALFAADLGKFVREGNTRGLFDNV 253 V E+ PLG G++ + KP+ IF + F ++ G+ Sbjct: 215 NVLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKT 274 Query: 254 EVVSLLTGEPEYLDPLKSEAPQNWIVTGYPWYAINTPEHKKFVEAYRKKY--NDYPRNGS 311 + + ++ + + + E + + + + +++ +KKFV ++ K+ N + + Sbjct: 275 QNLLTISVTEDEMLGIGGENVEGFFASMKYFQSLDNANNKKFVAEFKAKFGANSVIGDVT 334 Query: 312 LVGYSALMSIAAGIKKAGSTDADKLSAAFSGLKVDTPVASIVYRPQDHQ 360 Y A ++KAGS D DK+ AA G+++ T V ++H Sbjct: 335 QAAYLGPWLWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHENHH 383 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 0.317 0.134 0.391 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: 1,282,640 Number of extensions: 54410 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 17 Length of query: 404 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 317 Effective length of database: 1,207,925 Effective search space: 382912225 Effective search space used: 382912225 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 (21.6 bits) S2: 132 (55.5 bits)