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= 0014.0038.p (420 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC t... 770 0.0 gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmi... 278 5e-76 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 74 3e-14 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 60 2e-10 >gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 418 Score = 770 bits (1988), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/383 (97%), Positives = 380/383 (99%) Query: 38 AQQFPTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQINSMGGILGR 97 AQQ+PTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQIN+MGGILGR Sbjct: 36 AQQYPTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQINAMGGILGR 95 Query: 98 KIKIIQEDGASDWPTFAEKAKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF 157 KIKIIQEDGASDWPTFAEKAKKLLEND VAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF Sbjct: 96 KIKIIQEDGASDWPTFAEKAKKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF 155 Query: 158 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFLIGSDYIWPRTSNKIARKHIEN 217 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFL+GSDYIWPRTSNKIARKHIEN Sbjct: 156 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFLVGSDYIWPRTSNKIARKHIEN 215 Query: 218 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ 277 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ Sbjct: 216 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ 275 Query: 278 NLLTISVTEDEMLGIGGENVEGFYASMKYFQSLDNPNNKKFVSEFKAKFGANSVIGDVTQ 337 NLLTISVTEDEMLGIGGENVEGF+ASMKYFQSLDN NNKKFV+EFKAKFGANSVIGDVTQ Sbjct: 276 NLLTISVTEDEMLGIGGENVEGFFASMKYFQSLDNANNKKFVAEFKAKFGANSVIGDVTQ 335 Query: 338 AAYLGPWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKVHANHHLWSKTRIGEAQK 397 AAYLGPWLWKAAVEKAGSFDVDKVVAASPG+ELKTAPEGYVKVH NHHLWSKTRIGEAQK Sbjct: 336 AAYLGPWLWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHENHHLWSKTRIGEAQK 395 Query: 398 DGQFKVIYESDLIEPNPFPKGYQ 420 DGQFKV+YES+LIEPNPFPKGYQ Sbjct: 396 DGQFKVVYESELIEPNPFPKGYQ 418 >gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 417 Score = 278 bits (711), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 164/409 (40%), Positives = 236/409 (57%), Gaps = 31/409 (7%) Query: 14 RRKIMMGIVAGAAGAAMALPGLAMAQQFPTAKVNTTKLAITDTEVTVGQLHSATGTMAIS 73 RR ++ GA LA + P+A T + VG LHS +GTMAIS Sbjct: 3 RRTVLKATALGAFA-------LAASSWLPSAFAADT--------IKVGILHSLSGTMAIS 47 Query: 74 ETGSIQAERLAIDQINSMGGILGRKIKIIQEDGASDWPTFAEKAKKLLENDHVAAVFGCW 133 ET + ID+IN+ GG++G+K++ + D AS+WP FAEKA++L+ D V+ VFGCW Sbjct: 48 ETSLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCW 107 Query: 134 TSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQVLAGLNWVAKEK--KA 191 TS SRK+VLPVF++ N LL+YP YEG E KNVFYTG QQ + + ++ ++ A Sbjct: 108 TSVSRKSVLPVFKELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGA 167 Query: 192 KTFFLIGSDYIWPRTSNKIARKHIENV-LKGSVVGEEYYPLGNTQFGSLINKIK---LKK 247 K F L+G+DY++PRT+NKI R + + +K S + E Y P G++ + +++ IK Sbjct: 168 KRFVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGG 227 Query: 248 PDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLGIGGENVEGFYASMKYF 307 + + + G SNV FYK+L AG+ A ++ SV E+E+ G+ + + G A+ YF Sbjct: 228 KTAVISTINGDSNVPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYF 287 Query: 308 QSLDNPNNKKFVSEF----KAKFGANS---VIGDVTQAAYLGPWLWKAAVEKAGSFDVDK 360 +S+ NP N F+ ++ KAK N+ V D +A Y+G +W AVEKA S D DK Sbjct: 288 ESVKNPVNTAFIKKWKEYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDK 347 Query: 361 VVAASPGLELKTAPEGYV--KVHANHHLWSKTRIGEAQKDGQFKVIYES 407 V+AA G K AP GY NHHL IGE + DGQF V+Y++ Sbjct: 348 VIAAMGGQTYK-APSGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKT 395 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 82/343 (23%), Positives = 157/343 (45%), Gaps = 33/343 (9%) Query: 66 ATGTMAISETGSIQAE-----------RLAIDQINSMGGILGRKIKIIQEDGASDWPTFA 114 A T+ I E S +A+ +A+D+IN+ GG+LG+K+++I D + Sbjct: 28 AQDTIRIGEINSYKAQPAFLEPYRRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSV 87 Query: 115 EKAKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLLYY---PTFYEGLEQSKNVF-YT 170 A++L+ + VA +FG + S + A L + K + + + P + + Q+ N + Y Sbjct: 88 RVAEELMARERVALLFGGFLSNTGLA-LTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYR 146 Query: 171 GQEATQQVLAGLNWVAKEKKAKTFFLIGSDYIWP-------RTSNKIARKHIENVLKGSV 223 + +T ++A + A + K K + ++ +Y + +T K A+ +E Sbjct: 147 LRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVE------F 200 Query: 224 VGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTIS 283 V E+ PLG G++ + KPD IF + F ++ G+ + +++++ Sbjct: 201 VAEQAPPLGKIDAGAVTQALADAKPDAIFNALFAADLGKFVREGNTRGLFEQV-DVVSLL 259 Query: 284 VTEDEMLG-IGGENVEGFYASMKYFQSLDNPNNKKFVSEFKAKFGANSVIGDVTQAAYLG 342 E E L + GE + + + + ++ P +KKFV ++ KF N + + Y Sbjct: 260 TGEPEYLDPLKGEAPQNWIVTGYPWYAIHTPEHKKFVEAYRKKF--NDYPRNGSLVGYSA 317 Query: 343 PWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKVHANHH 385 A + KAGS D D++ AA GL+++T V +H Sbjct: 318 LMSIAAGLRKAGSTDADRLAAAFSGLKVETPVASIVYRPQDHQ 360 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 73/295 (24%), Positives = 132/295 (44%), Gaps = 13/295 (4%) Query: 94 ILGRKIKIIQEDGASDWPTFAEK-AKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLL 152 + G+KI+II +D P A++ A++L+ + V + G + AV P+ E+ + Sbjct: 63 VAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPM 122 Query: 153 YYPTFYEGLEQSKNVFYTGQEATQQVLAG--LNWVAKEKKAKTFFLIGSDYIWPRTSNKI 210 + +K+ + T ++G W K + L+ +DY P + Sbjct: 123 IIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLV-ADY-GPGIDAET 180 Query: 211 ARKHIENVLKG--SVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGS-NVAFYKQL 267 A K N+L G V+ PL N +F I +IK KP+ +F V G ++AF K Sbjct: 181 AFK--TNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGY 238 Query: 268 KAAGVT-AKTQNLLTISVTEDEMLGIGGENVEGFYASMKYFQSLDNPNNKKFVSEFKAKF 326 + G+ A + + T +T+D ++ GE+ G + Y + D+P NK F+ F A Sbjct: 239 RERGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAAN 298 Query: 327 GANSVIGDVTQAAYLG-PWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKV 380 + AAY G +++ + + G D D+ +A ++ T+P G + + Sbjct: 299 PGAGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKF-TSPRGPIAI 352 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 0.315 0.131 0.380 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: 1,160,499 Number of extensions: 46612 Number of successful extensions: 169 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 169 Number of HSP's successfully gapped: 8 Length of query: 420 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 332 Effective length of database: 1,203,190 Effective search space: 399459080 Effective search space used: 399459080 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)