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= 0013.0203.p (402 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 8e-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 = 373/383 (97%), Positives = 380/383 (99%) Query: 20 AQQFPTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQINSMGGILGR 79 AQQ+PTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQIN+MGGILGR Sbjct: 36 AQQYPTAKVNTTKLAITDTEVTVGQLHSATGTMAISETGSIQAERLAIDQINAMGGILGR 95 Query: 80 KIKIIQEDGASDWPTFAEKAKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF 139 KIKIIQEDGASDWPTFAEKAKKLLEND VAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF Sbjct: 96 KIKIIQEDGASDWPTFAEKAKKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTF 155 Query: 140 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFLIGSDYIWPRTSNKIARKHIEN 199 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFL+GSDYIWPRTSNKIARKHIEN Sbjct: 156 YEGLEQSKNVFYTGQEATQQVLAGLNWVAKEKKAKTFFLVGSDYIWPRTSNKIARKHIEN 215 Query: 200 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ 259 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ Sbjct: 216 VLKGSVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQ 275 Query: 260 NLLTISVTEDEMLGIGGENVEGFYASMKYFQSLDNPNNKKFVAEFKAKFGANSVIGDVTQ 319 NLLTISVTEDEMLGIGGENVEGF+ASMKYFQSLDN NNKKFVAEFKAKFGANSVIGDVTQ Sbjct: 276 NLLTISVTEDEMLGIGGENVEGFFASMKYFQSLDNANNKKFVAEFKAKFGANSVIGDVTQ 335 Query: 320 AAYLGPWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKVHANHHLWSKTRIGEAQK 379 AAYLGPWLWKAAVEKAGSFDVDKVVAASPG+ELKTAPEGYVKVH NHHLWSKTRIGEAQK Sbjct: 336 AAYLGPWLWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHENHHLWSKTRIGEAQK 395 Query: 380 DGQFKVIYESDLIEPNPFPKGYQ 402 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 (710), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 155/365 (42%), Positives = 223/365 (61%), Gaps = 16/365 (4%) Query: 40 VTVGQLHSATGTMAISETGSIQAERLAIDQINSMGGILGRKIKIIQEDGASDWPTFAEKA 99 + VG LHS +GTMAISET + ID+IN+ GG++G+K++ + D AS+WP FAEKA Sbjct: 32 IKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNWPLFAEKA 91 Query: 100 KKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQ 159 ++L+ D V+ VFGCWTS SRK+VLPVF++ N LL+YP YEG E KNVFYTG QQ Sbjct: 92 RQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSLLFYPVQYEGEELEKNVFYTGAAPNQQ 151 Query: 160 VLAGLNWVAKEK--KAKTFFLIGSDYIWPRTSNKIARKHIENV-LKGSVVGEEYYPLGNT 216 + + ++ ++ AK F L+G+DY++PRT+NKI R + + +K S + E Y P G++ Sbjct: 152 AIPAVEYLMSKEGGGAKRFVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHS 211 Query: 217 QFGSLINKIK---LKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLG 273 + +++ IK + + + G SNV FYK+L AG+ A ++ SV E+E+ G Sbjct: 212 DYQTIVANIKKFSAGGKTAVISTINGDSNVPFYKELGNAGLKATDVPVVAFSVGEEELRG 271 Query: 274 IGGENVEGFYASMKYFQSLDNPNNKKFVAEF----KAKFGANS---VIGDVTQAAYLGPW 326 + + + G A+ YF+S+ NP N F+ ++ KAK N+ V D +A Y+G Sbjct: 272 VDTKPLVGHLAAWNYFESVKNPVNTAFIKKWKEYAKAKNLPNADTVVTNDPMEATYVGIH 331 Query: 327 LWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYV--KVHANHHLWSKTRIGEAQKDGQFK 384 +W AVEKA S D DKV+AA G K AP GY NHHL IGE + DGQF Sbjct: 332 MWAQAVEKAKSTDTDKVIAAMGGQTYK-APSGYTLEMDKTNHHLHKPVMIGEIKADGQFN 390 Query: 385 VIYES 389 V+Y++ Sbjct: 391 VVYKT 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: 48 ATGTMAISETGSIQAE-----------RLAIDQINSMGGILGRKIKIIQEDGASDWPTFA 96 A T+ I E S +A+ +A+D+IN+ GG+LG+K+++I D + Sbjct: 28 AQDTIRIGEINSYKAQPAFLEPYRRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSV 87 Query: 97 EKAKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLLYY---PTFYEGLEQSKNVF-YT 152 A++L+ + VA +FG + S + A L + K + + + P + + Q+ N + Y Sbjct: 88 RVAEELMARERVALLFGGFLSNTGLA-LTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYR 146 Query: 153 GQEATQQVLAGLNWVAKEKKAKTFFLIGSDYIWP-------RTSNKIARKHIENVLKGSV 205 + +T ++A + A + K K + ++ +Y + +T K A+ +E Sbjct: 147 LRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVE------F 200 Query: 206 VGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTIS 265 V E+ PLG G++ + KPD IF + F ++ G+ + +++++ Sbjct: 201 VAEQAPPLGKIDAGAVTQALADAKPDAIFNALFAADLGKFVREGNTRGLFEQV-DVVSLL 259 Query: 266 VTEDEMLG-IGGENVEGFYASMKYFQSLDNPNNKKFVAEFKAKFGANSVIGDVTQAAYLG 324 E E L + GE + + + + ++ P +KKFV ++ KF N + + Y Sbjct: 260 TGEPEYLDPLKGEAPQNWIVTGYPWYAIHTPEHKKFVEAYRKKF--NDYPRNGSLVGYSA 317 Query: 325 PWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKVHANHH 367 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: 76 ILGRKIKIIQEDGASDWPTFAEK-AKKLLENDHVAAVFGCWTSASRKAVLPVFEKDNGLL 134 + G+KI+II +D P A++ A++L+ + V + G + AV P+ E+ + Sbjct: 63 VAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPM 122 Query: 135 YYPTFYEGLEQSKNVFYTGQEATQQVLAG--LNWVAKEKKAKTFFLIGSDYIWPRTSNKI 192 + +K+ + T ++G W K + L+ +DY P + Sbjct: 123 IIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLV-ADY-GPGIDAET 180 Query: 193 ARKHIENVLKG--SVVGEEYYPLGNTQFGSLINKIKLKKPDVIFADVVGGS-NVAFYKQL 249 A K N+L G V+ PL N +F I +IK KP+ +F V G ++AF K Sbjct: 181 AFK--TNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGY 238 Query: 250 KAAGVT-AKTQNLLTISVTEDEMLGIGGENVEGFYASMKYFQSLDNPNNKKFVAEFKAKF 308 + G+ A + + T +T+D ++ GE+ G + Y + D+P NK F+ F A Sbjct: 239 RERGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAAN 298 Query: 309 GANSVIGDVTQAAYLG-PWLWKAAVEKAGSFDVDKVVAASPGLELKTAPEGYVKV 362 + 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 0.132 0.385 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: 1,161,577 Number of extensions: 46742 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 168 Number of HSP's successfully gapped: 8 Length of query: 402 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 315 Effective length of database: 1,207,925 Effective search space: 380496375 Effective search space used: 380496375 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)