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= 0001.4606.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... 851 0.0 gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC t... 281 1e-76 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 69 7e-13 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 61 2e-10 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 59 6e-10 >gi|300313995|ref|YP_003778087.1| urea ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 417 Score = 851 bits (2198), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/417 (99%), Positives = 414/417 (99%) Query: 1 MSRRTVLKATALGAFALAASSWLPSAFAADTIKVGILHSLSGTMAISETSLKDVALMTID 60 MSRRTVLKATALGAFALAASSWLPSAFAADTIKVGILHSLSGTMAISETSLKDVALMTID Sbjct: 1 MSRRTVLKATALGAFALAASSWLPSAFAADTIKVGILHSLSGTMAISETSLKDVALMTID 60 Query: 61 EINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK 120 EINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK Sbjct: 61 EINAAGGVMGKKLEPVVVDPASNWPLFAEKARQLISQDKVSVVFGCWTSVSRKSVLPVFK 120 Query: 121 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYP 180 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYP Sbjct: 121 ELNSLLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYP 180 Query: 181 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSN 240 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSN Sbjct: 181 RTTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSN 240 Query: 241 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVNAAFIK 300 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVN AFIK Sbjct: 241 VPFYKELGNAGLKATDVPVVAFSVGEEELRGVDTKPLVGHLAAWNYFESVKNPVNTAFIK 300 Query: 301 KWKAYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAMAGQTFKAP 360 KWK YAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAM GQT+KAP Sbjct: 301 KWKEYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAMGGQTYKAP 360 Query: 361 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKTKTTIRAQPWSPYIPGNESKQKN 417 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKTKTTIRAQPWSPYIPGNESKQKN Sbjct: 361 SGYTLEMDKTNHHLHKPVMIGEIKADGQFNVVYKTKTTIRAQPWSPYIPGNESKQKN 417 >gi|300311947|ref|YP_003776039.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 418 Score = 281 bits (718), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 155/366 (42%), Positives = 224/366 (61%), Gaps = 16/366 (4%) Query: 32 IKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNWPLFAEKA 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 AIPAVEYLMSKEGGGAKRFVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEVYTPFGHS 211 + + ++ ++ AK F L+G+DY++PRT+NKI R + + +K S + E Y P G++ Sbjct: 176 VLAGLNWVAKEK--KAKTFFLVGSDYIWPRTSNKIARKHIENV-LKGSVVGEEYYPLGNT 232 Query: 212 DYQTIVANIKKFSAGGKTAVISTINGDSNVPFYKELGNAGLKATDVPVVAFSVGEEELRG 271 + +++ IK + + + G SNV FYK+L AG+ A ++ SV E+E+ G Sbjct: 233 QFGSLINKIK---LKKPDVIFADVVGGSNVAFYKQLKAAGVTAKTQNLLTISVTEDEMLG 289 Query: 272 VDTKPLVGHLAAWNYFESVKNPVNAAFIKKWKAYAKAKNLPNADTVVTNDPMEATYVGIH 331 + + + G A+ YF+S+ N N F+ ++KA A + V D +A Y+G Sbjct: 290 IGGENVEGFFASMKYFQSLDNANNKKFVAEFKAKFGANS-------VIGDVTQAAYLGPW 342 Query: 332 MWAQAVEKAKSTDTDKVIAAMAGQTFK-APSGYTLEMDKTNHHLHKPVMIGEIKADGQFN 390 +W AVEKA S D DKV+AA G K AP GY + NHHL IGE + DGQF Sbjct: 343 LWKAAVEKAGSFDVDKVVAASPGIELKTAPEGYVKVHE--NHHLWSKTRIGEAQKDGQFK 400 Query: 391 VVYKTK 396 VVY+++ Sbjct: 401 VVYESE 406 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 102/399 (25%), Positives = 171/399 (42%), Gaps = 58/399 (14%) Query: 14 AFALAA-SSWLPSAFAADTIKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKK 72 AF AA S ++ AAD IK+G+ +G A S++D + + EINAAGG++G++ Sbjct: 7 AFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQ 66 Query: 73 LEPVVVDPASNWPLFAEKARQLISQDKVSVVFG-CWTSVS-------RKSVLPVFKELNS 124 ++ + D + + A++LI+++KV G T V+ +++ +PV + + Sbjct: 67 IQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVAT 126 Query: 125 LLFYPVQYEGEELEKNVFYTGAAPNQQAIPAVEYLMSKEGGGAKRFV---LLGTDYVYPR 181 Q+E E+ + VF T AA QA +++ E ++F +L Y + Sbjct: 127 GTVITKQFEKEK-DNYVFRTSAADKIQA-----KMIADEAVDKQKFTKVAILADSTNYGQ 180 Query: 182 TTNKILRAFLHSKGVKDSDIDEVYTPFGHSDYQT----IVANIKKFSAGGKTAVISTING 237 + L L K V TP Y + A + K GG AV++ G Sbjct: 181 LGREDLEKVLADKKV---------TPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIG 231 Query: 238 DSNVPFYKELGNAGLKAT-DVPVVA---FSVGEEELRGVDTKPLVGHLAAW--NYFESVK 291 P ++ N K VP++ S+G +D G+ A + + Sbjct: 232 ----PELAQIANGMEKLNWHVPIIGSWPLSMGNF----IDNSGKNGNGARMPQTFIQDGN 283 Query: 292 NPVNAAFIKKWKAYAKAKNLPNADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAA 351 P AFI+ ++ K +P+A + Y I + A A+++A +TD DKV AA Sbjct: 284 TPKRKAFIEAYQKAYKVDRMPSAVSAAQG------YDSILLLAAAIKQAGTTDGDKVRAA 337 Query: 352 MAGQTFKAPSGYTLEMDK----TNHHLHKPVMI--GEIK 384 + K G DK +H KP M+ GE+K Sbjct: 338 LENLNTKV-EGVVTTYDKPFTHDDHEAIKPAMVVMGEVK 375 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 93/355 (26%), Positives = 148/355 (41%), Gaps = 45/355 (12%) Query: 29 ADTIKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNWPLFA 88 A+T+K+ I ++G +A +K AL I++INAAGG G K E V++D A Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQAV 85 Query: 89 EKARQLISQDKVSVVFGCWTSVSRKSVLPVFKELNSLLFYPV----QYEGEELEKNVFYT 144 A +++SQ + V G S S +++ ++ P Q + K +F T Sbjct: 86 AVANKIVSQG-IKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRT 144 Query: 145 GAAPNQQAIPAVEYLMSKEGGGAKRFVLLGTDYVYPRTTNKILRAFLHSKGVKDSDIDEV 204 +QQ A Y++ K K+ +L Y + ++A L + V + + Sbjct: 145 IGRDDQQGPAAARYVIEKL--KPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGI 202 Query: 205 YTPFGHSDYQTIVANIKKFSA-----GGKTAVISTINGDSNVPFYKELGNAGLKATDVPV 259 G SDY IV +K GG ++ E+G +A + + Sbjct: 203 NA--GDSDYSAIVTKLKSQGVDFVYFGG---------------YHPEMGLIMRQAREQGI 245 Query: 260 VAFSVGEEELRGVDTKPLVGHLAAWNYF----ESVKNPVNAAFIKKWKAYAKAKNLPNAD 315 A +G E + D + G + + +P NAA KA+A AK PN Sbjct: 246 KAVFMGPEGVGNKDITAIAGPASEGMLVTLPADFAADPANAA---LVKAFAAAKRDPNG- 301 Query: 316 TVVTNDPMEA-TYVGIHMWAQAVEKAKSTDTDKVIAAMAGQTFKAPSGYTLEMDK 369 P + Y G+ + A A+ AKSTD +KV A + +FK P G +E DK Sbjct: 302 ------PFQMPAYSGVKIIADAIAGAKSTDPEKVAAYIHANSFKTPIG-NVEYDK 349 >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 = 6e-10, Method: Compositional matrix adjust. Identities = 81/348 (23%), Positives = 146/348 (41%), Gaps = 36/348 (10%) Query: 25 SAFAADTIKVGILHSLSGTMAISETSLKDVALMTIDEINAAGGVMGKKLEPVVVDPASNW 84 +A 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 TGAAPNQQAIPAVEYLMSKEGGGA-----KRFVLLGTDYVYPRTTNKILRAFLHSKGVKD 198 G + P+ L++ A KR+ ++ +Y Y ++ + + Sbjct: 139 NGNKYTYRLRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDV 198 Query: 199 SDIDEVYTPFGHSDYQTIVANIKKFSAGGKTAVISTINGDSNVPFYKELGNAGLKATDVP 258 + E P G D + + + A+ + + F +E GL V Sbjct: 199 EFVAEQAPPLGKIDAGAVT---QALADAKPDAIFNALFAADLGKFVREGNTRGL-FEQVD 254 Query: 259 VVAFSVGEEELRGVDTKPLVGHLAAWNY------FESVKNPVNAAFIKKWKAYAKAKNLP 312 VV+ GE E PL G A N+ + ++ P + F++ ++ K + P Sbjct: 255 VVSLLTGEPEY----LDPLKGE-APQNWIVTGYPWYAIHTPEHKKFVEAYR--KKFNDYP 307 Query: 313 NADTVVTNDPMEATYVGIHMWAQAVEKAKSTDTDKVIAAMAGQTFKAP 360 ++V Y + A + KA STD D++ AA +G + P Sbjct: 308 RNGSLV-------GYSALMSIAAGLRKAGSTDADRLAAAFSGLKVETP 348 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 0.130 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: 1,254,765 Number of extensions: 51658 Number of successful extensions: 166 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 8 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)