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= 0047.0011.p (417 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmi... 833 0.0 gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC t... 277 1e-75 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 65 1e-11 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 59 5e-10 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 57 2e-09 >gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 417 Score = 833 bits (2153), Expect = 0.0, Method: Compositional matrix adjust. Identities = 403/416 (96%), Positives = 410/416 (98%) Query: 1 MSRRTILKATALGAFALAASSWLPAAFAADTIKVGILHSLSGTMAISETSLKDVALMTID 60 MSRRT+LKATALGAFALAASSWLP+AFAADTIKVGILHSLSGTMAISETSLKDVALMTID Sbjct: 1 MSRRTVLKATALGAFALAASSWLPSAFAADTIKVGILHSLSGTMAISETSLKDVALMTID 60 Query: 61 EINANGGVMGKKLEPVIVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK 120 EINA GGVMGKKLEPV+VDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK Sbjct: 61 EINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK 120 Query: 121 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPATEYLMSKEGGGAKRFVLLGTDYVYP 180 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPA EYLMSKEGGGAKRFVLLGTDYVYP Sbjct: 121 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYP 180 Query: 181 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFAAGGKTAVISTINGDSN 240 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKF+AGGKTAVISTINGDSN Sbjct: 181 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSN 240 Query: 241 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVNTAFIK 300 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVNTAFIK Sbjct: 241 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVNTAFIK 300 Query: 301 KWKAYAKAKGLPNADTVVTNDPMEATYVGIYMWKQAVEKAKTTDTDKVIAAMGGQTFKAP 360 KWK YAKAK LPNADTVVTNDPMEATYVGI+MW QAVEKAK+TDTDKVIAAMGGQT+KAP Sbjct: 301 KWKEYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAMGGQTYKAP 360 Query: 361 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVNKTKTTIRAQPWSPYIPGNESKQK 416 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVV KTKTTIRAQPWSPYIPGNESKQK Sbjct: 361 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKTKTTIRAQPWSPYIPGNESKQK 416 >gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 418 Score = 277 bits (708), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 154/366 (42%), Positives = 223/366 (60%), Gaps = 16/366 (4%) Query: 32 IKVGILHSLSGTMAISETSLKDVALMTIDEINANGGVMGKKLEPVIVDPASNWPLFAEKA 91 + VG LHS +GTMAISET + ID+INA GG++G+K++ + D AS+WP FAEKA Sbjct: 56 VTVGQLHSATGTMAISETGSIQAERLAIDQINAMGGILGRKIKIIQEDGASDWPTFAEKA 115 Query: 92 RQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSLLFYPVQYEGEELEKNVFYTGAAPNQQ 151 ++L+ D+V+ VFGCWTS SRK+VLPVF++ N LL+YP YEG E KNVFYTG QQ Sbjct: 116 KKLLENDRVAAVFGCWTSASRKAVLPVFEKDNGLLYYPTFYEGLEQSKNVFYTGQEATQQ 175 Query: 152 AIPATEYLMSKEGGGAKRFVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHS 211 + ++ ++ AK F L+G+DY++PRT+NKI R + + +K S + E Y P G++ Sbjct: 176 VLAGLNWVAKEK--KAKTFFLVGSDYIWPRTSNKIARKHIENV-LKGSVVGEEYYPLGNT 232 Query: 212 DYQTIVANIKKFAAGGKTAVISTINGDSNVPFYKELGNAGLKATDVPVVAFSVGEEELRG 271 + +++ IK + + + G SNV FYK+L AG+ A ++ SV E+E+ G Sbjct: 233 QFGSLINKIK---LKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLG 289 Query: 272 VDTKPLVGHLAAWNYFESVKNPVNTAFIKKWKAYAKAKGLPNADTVVTNDPMEATYVGIY 331 + + + G A+ YF+S+ N N F+ ++KA A V D +A Y+G + Sbjct: 290 IGGENVEGFFASMKYFQSLDNANNKKFVAEFKAKFGANS-------VIGDVTQAAYLGPW 342 Query: 332 MWKQAVEKAKTTDTDKVIAAMGGQTFK-APSGYTLEMDKTNHHLHKPVMIGEIKADGQFN 390 +WK AVEKA + D DKV+AA G K AP GY + NHHL IGE + DGQF Sbjct: 343 LWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHE--NHHLWSKTRIGEAQKDGQFK 400 Query: 391 VVNKTK 396 VV +++ Sbjct: 401 VVYESE 406 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 101/403 (25%), Positives = 169/403 (41%), Gaps = 64/403 (15%) Query: 9 ATALGAFALAASSWLPAAFAADTIKVGILHSLSGTMAISETSLKDVALMTIDEINANGGV 68 A AL + AL + AAD IK+G+ +G A S++D + + EINA GG+ Sbjct: 10 AAALMSLALTSQ-------AADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGL 62 Query: 69 MGKKLEPVIVDPASNWPLFAEKARQLISQDKVSVVFG-CWTSVS-------RKSVLPVFK 120 +G++++ + D + + A++LI+++KV G T V+ +++ +PV Sbjct: 63 LGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVIN 122 Query: 121 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPATEYLMSKEGGGAKRFV---LLGTDY 177 + + Q+E E+ + VF T AA QA +++ E ++F +L Sbjct: 123 NVATGTVITKQFEKEK-DNYVFRTSAADKIQA-----KMIADEAVDKQKFTKVAILADST 176 Query: 178 VYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQT----IVANIKKFAAGGKTAVIS 233 Y + + L L K V TP Y + A + K GG AV++ Sbjct: 177 NYGQLGREDLEKVLADKKV---------TPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLT 227 Query: 234 TINGDSNVPFYKELGNAGLKAT-DVPVVA---FSVGEEELRGVDTKPLVGHLAAW--NYF 287 G P ++ N K VP++ S+G +D G+ A + Sbjct: 228 YGIG----PELAQIANGMEKLNWHVPIIGSWPLSMGNF----IDNSGKNGNGARMPQTFI 279 Query: 288 ESVKNPVNTAFIKKWKAYAKAKGLPNADTVVTNDPMEATYVGIYMWKQAVEKAKTTDTDK 347 + P AFI+ ++ K +P+A + Y I + A+++A TTD DK Sbjct: 280 QDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQG------YDSILLLAAAIKQAGTTDGDK 333 Query: 348 VIAAMGGQTFKAPSGYTLEMDK----TNHHLHKPVMI--GEIK 384 V AA+ K G DK +H KP M+ GE+K Sbjct: 334 VRAALENLNTKV-EGVVTTYDKPFTHDDHEAIKPAMVVMGEVK 375 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 82/348 (23%), Positives = 145/348 (41%), Gaps = 36/348 (10%) Query: 25 AAFAADTIKVGILHSLSGTMAISETSLKDVALMTIDEINANGGVMGKKLEPVIVDPASNW 84 AA A DTI++G ++S A E + M +DEINA+GGV+GKKLE + D N Sbjct: 25 AARAQDTIRIGEINSYKAQPAFLEPYRRGWE-MALDEINASGGVLGKKLEVIARDDNGNP 83 Query: 85 PLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSLLFYPVQYEGEEL-EKNVFY 143 A +L+++++V+++FG + S + ++ K+ E L +K V+ Sbjct: 84 GDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQHRVFFL-----AAEPLTDKIVWQ 138 Query: 144 TGAAPNQQAIPATEYLMSKEGGGA-----KRFVLLGTDYVYPRTTNKILRAFLHSKGVKD 198 G + P+T L++ A KR+ ++ +Y Y ++ + + Sbjct: 139 NGNKYTYRLRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDV 198 Query: 199 SDIDEVYTPFGHSDYQTIVANIKKFAAGGKTAVISTINGDSNVPFYKELGNAGLKATDVP 258 + E P G D + + A A+ + + F +E GL V Sbjct: 199 EFVAEQAPPLGKIDAGAVT---QALADAKPDAIFNALFAADLGKFVREGNTRGL-FEQVD 254 Query: 259 VVAFSVGEEELRGVDTKPLVGHLAAWNY------FESVKNPVNTAFIKKWKAYAKAKGLP 312 VV+ GE E PL G A N+ + ++ P + F++ ++ K P Sbjct: 255 VVSLLTGEPEY----LDPLKGE-APQNWIVTGYPWYAIHTPEHKKFVEAYR--KKFNDYP 307 Query: 313 NADTVVTNDPMEATYVGIYMWKQAVEKAKTTDTDKVIAAMGGQTFKAP 360 ++V + + G+ KA +TD D++ AA G + P Sbjct: 308 RNGSLVGYSALMSIAAGL-------RKAGSTDADRLAAAFSGLKVETP 348 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 79/313 (25%), Positives = 127/313 (40%), Gaps = 57/313 (18%) Query: 17 LAASSWLPAAFAADTIKVGILHSLSGTMAISETSLKDVALMTIDEINANGGVMGKKLEPV 76 L ++ AA AAD IK+G+ +L+G A ++K+ + +EINA GGV G KL V Sbjct: 14 LIGATLSQAALAAD-IKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLALV 72 Query: 77 IVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSLLF--------- 127 I D ++LI QDKV VFG S S + P+ ++F Sbjct: 73 IEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADGI 132 Query: 128 ---YPVQYEGEELEKNVFYTGAAPNQQAIPATEYLMSKEGGGAKRFVLLGTDYVYPRTTN 184 P + +E +V +P T K G K V+ G D + ++ Sbjct: 133 TAMGPFTFRNSVMEADV-----------LPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGY 181 Query: 185 KILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFAAGGKTAVISTINGD--SNV- 241 + +A L + + + E Y G D++ A + K AG A++ + + +N+ Sbjct: 182 DVFKATLEHQKIPVT-TTEAYAK-GDVDFK---AQLTKIKAGNPDAIVCSCLAEEAANII 236 Query: 242 ----------PFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVK 291 PF +G GL + + +A G+ L G + W+ + Sbjct: 237 LQTRALGMKQPF---IGGNGLNSPKLFEIAKDAGDNTLMG----------SPWS--AENQ 281 Query: 292 NPVNTAFIKKWKA 304 P N AFI +KA Sbjct: 282 TPANKAFITAYKA 294 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 0.383 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: 1,220,157 Number of extensions: 51125 Number of successful extensions: 152 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 7 Length of query: 417 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 329 Effective length of database: 1,203,190 Effective search space: 395849510 Effective search space used: 395849510 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)