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= 0001.2678.p (418 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... 852 0.0 gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmi... 285 6e-78 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 77 2e-15 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 61 1e-10 >gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 418 Score = 852 bits (2201), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/418 (99%), Positives = 417/418 (99%) Query: 1 MSHSSSSNPPSFPRRKILMGLAAGAAAAALPGMASAQQYPTAKVNTTKLAITDTEVTVGQ 60 MSHSSSS+PPSFPRRKILMGLAAGAAAAALPGMASAQQYPTAKVNTTKLAITDTEVTVGQ Sbjct: 1 MSHSSSSHPPSFPRRKILMGLAAGAAAAALPGMASAQQYPTAKVNTTKLAITDTEVTVGQ 60 Query: 61 LHSATGTMAISETGSIQAERLAIDQINAMGGILGRKIKIIQEDGASDWPTFAEKAKKLLE 120 LHSATGTMAISETGSIQAERLAIDQINAMGGILGRKIKIIQEDGASDWPTFAEKAKKLLE Sbjct: 61 LHSATGTMAISETGSIQAERLAIDQINAMGGILGRKIKIIQEDGASDWPTFAEKAKKLLE 120 Query: 121 NDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQVLAGL 180 NDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQVLAGL Sbjct: 121 NDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQVLAGL 180 Query: 181 NWVAKEKKAKTFFLVGSDYIWPRTSNKIARKHIENVLKGSVVGEEYYPLGNTQFGSLINK 240 NWVAKEKKAKTFFLVGSDYIWPRTSNKIARKHIENVLKGSVVGEEYYPLGNTQFGSLINK Sbjct: 181 NWVAKEKKAKTFFLVGSDYIWPRTSNKIARKHIENVLKGSVVGEEYYPLGNTQFGSLINK 240 Query: 241 IKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLGIGGENVEGFFA 300 IKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLGIGGENVEGFFA Sbjct: 241 IKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLGIGGENVEGFFA 300 Query: 301 SMKYFQSLDNPNNKKFVAEFKAKFGANSVIGDVTQAAYLGPWLWKAAVEKAGSFDVDKVV 360 SMKYFQSLDN NNKKFVAEFKAKFGANSVIGDVTQAAYLGPWLWKAAVEKAGSFDVDKVV Sbjct: 301 SMKYFQSLDNANNKKFVAEFKAKFGANSVIGDVTQAAYLGPWLWKAAVEKAGSFDVDKVV 360 Query: 361 AASPGIELKTAPEGYVKVHENHHLWSKTRIGEAQKDGQFKVVYESELIEPNPFPKGYQ 418 AASPGIELKTAPEGYVKVHENHHLWSKTRIGEAQKDGQFKVVYESELIEPNPFPKGYQ Sbjct: 361 AASPGIELKTAPEGYVKVHENHHLWSKTRIGEAQKDGQFKVVYESELIEPNPFPKGYQ 418 >gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 417 Score = 285 bits (728), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 168/408 (41%), Positives = 242/408 (59%), Gaps = 29/408 (7%) Query: 14 RRKILMGLAAGAAAAALPGMASAQQYPTAKVNTTKLAITDTEVTVGQLHSATGTMAISET 73 RR +L A GA A +A++ P+A T + VG LHS +GTMAISET Sbjct: 3 RRTVLKATALGAFA-----LAASSWLPSAFAADT--------IKVGILHSLSGTMAISET 49 Query: 74 GSIQAERLAIDQINAMGGILGRKIKIIQEDGASDWPTFAEKAKKLLENDRVAAVFGCWTS 133 + ID+INA GG++G+K++ + D AS+WP FAEKA++L+ D+V+ VFGCWTS Sbjct: 50 SLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTS 109 Query: 134 ASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQVLAGLNWVAKEK--KAKT 191 SRK+VLPVF++ N LL+YP YEG E KNVFYTG QQ + + ++ ++ AK Sbjct: 110 VSRKSVLPVFKELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKR 169 Query: 192 FFLVGSDYIWPRTSNKIARKHIENV-LKGSVVGEEYYPLGNTQFGSLINKIK---LKKPD 247 F L+G+DY++PRT+NKI R + + +K S + E Y P G++ + +++ IK Sbjct: 170 FVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKT 229 Query: 248 VIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLGIGGENVEGFFASMKYFQS 307 + + + G SNV FYK+L AG+ A ++ SV E+E+ G+ + + G A+ YF+S Sbjct: 230 AVISTINGDSNVPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFES 289 Query: 308 LDNPNNKKFVAEF----KAKFGANS---VIGDVTQAAYLGPWLWKAAVEKAGSFDVDKVV 360 + NP N F+ ++ KAK N+ V D +A Y+G +W AVEKA S D DKV+ Sbjct: 290 VKNPVNTAFIKKWKEYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVI 349 Query: 361 AASPGIELKTAPEGYVKVHE--NHHLWSKTRIGEAQKDGQFKVVYESE 406 AA G K AP GY + NHHL IGE + DGQF VVY+++ Sbjct: 350 AAMGGQTYK-APSGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKTK 396 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 84/343 (24%), Positives = 159/343 (46%), Gaps = 33/343 (9%) Query: 64 ATGTMAISETGSIQAE-----------RLAIDQINAMGGILGRKIKIIQEDGASDWPTFA 112 A T+ I E S +A+ +A+D+INA GG+LG+K+++I D + Sbjct: 28 AQDTIRIGEINSYKAQPAFLEPYRRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSV 87 Query: 113 EKAKKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLLYY---PTFYEGLEQSKNVF-YT 168 A++L+ +RVA +FG + S + A L + K + + + P + + Q+ N + Y Sbjct: 88 RVAEELMARERVALLFGGFLSNTGLA-LTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYR 146 Query: 169 GQEATQQVLAGLNWVAKEKKAKTFFLVGSDYIWP-------RTSNKIARKHIENVLKGSV 221 + +T ++A + A + K K + +V +Y + +T K A+ +E Sbjct: 147 LRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVE------F 200 Query: 222 VGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTIS 281 V E+ PLG G++ + KPD IF + F ++ G+ + +++++ Sbjct: 201 VAEQAPPLGKIDAGAVTQALADAKPDAIFNALFAADLGKFVREGNTRGLFEQV-DVVSLL 259 Query: 282 VTEDEMLG-IGGENVEGFFASMKYFQSLDNPNNKKFVAEFKAKFGANSVIGDVTQAAYLG 340 E E L + GE + + + + ++ P +KKFV ++ KF N + + Y Sbjct: 260 TGEPEYLDPLKGEAPQNWIVTGYPWYAIHTPEHKKFVEAYRKKF--NDYPRNGSLVGYSA 317 Query: 341 PWLWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHENHH 383 A + KAGS D D++ AA G++++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 = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 77/298 (25%), Positives = 136/298 (45%), Gaps = 19/298 (6%) Query: 92 ILGRKIKIIQEDGASDWPTFAEK-AKKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLL 150 + G+KI+II +D P A++ A++L+ ++V + G + AV P+ E+ + Sbjct: 63 VAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPM 122 Query: 151 YYPTFYEGLEQSKNVFYTGQEATQQVLAG--LNWVAKEKKAKTFFLVGSDYIWPRTSNKI 208 + +K+ + T ++G W K + LV +DY P + Sbjct: 123 IIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLV-ADY-GPGIDAET 180 Query: 209 ARKHIENVLKG--SVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGG-SNVAFYKQL 265 A K N+L G V+ PL N +F I +IK KP+ +F V G ++AF K Sbjct: 181 AFK--TNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGY 238 Query: 266 KAAGVT-AKTQNLLTISVTEDEMLGIGGENVEGFFASMKYFQSLDNPNNKKFVAEFKAKF 324 + G+ A + + T +T+D ++ GE+ G + Y + D+P NK F+ F A Sbjct: 239 RERGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAA-- 296 Query: 325 GANSVIGD---VTQAAYLG-PWLWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKV 378 AN G + AAY G +++ + + G D D+ +A ++ T+P G + + Sbjct: 297 -ANPGAGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKF-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 0.314 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: 1,158,216 Number of extensions: 46601 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 8 Length of query: 418 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 330 Effective length of database: 1,203,190 Effective search space: 397052700 Effective search space used: 397052700 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: 42 (22.0 bits) S2: 132 (55.5 bits)