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= 0001.2159.p (630 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 902 0.0 gi|300312954|ref|YP_003777046.1| amino acid ABC transporter perm... 161 2e-40 gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC t... 154 2e-38 gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC t... 127 3e-30 gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 121 1e-28 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 902 bits (2330), Expect = 0.0, Method: Compositional matrix adjust. Identities = 514/596 (86%), Positives = 557/596 (93%) Query: 1 MTLASLTVQLLNGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGLYVAYSLVDRLG 60 MTLASL VQLLNGLADASAMF+VAAGLSLIFGVTRIVNFAHGSFYMLGLY+AYSLVDRLG Sbjct: 1 MTLASLAVQLLNGLADASAMFMVAAGLSLIFGVTRIVNFAHGSFYMLGLYLAYSLVDRLG 60 Query: 61 ASALGFWAAVLLSALTVAALGALVEVLVLRRIYRAPELFQLLATFALVLVIKDAVLWAWG 120 A+ G+WAA+LL+AL VAALGALVE+ +LRRIYRAPELFQLLATFALVLVIKDA LW WG Sbjct: 61 ATPWGYWAALLLAALPVAALGALVELTILRRIYRAPELFQLLATFALVLVIKDAALWYWG 120 Query: 121 PEDLFGPRAPGLAGAVHLLGRRLPQYDLLLIFIGPLVFALLWLLLNRTRWGTLIRAATQD 180 PEDLFGPRAPGLAGAV +LGRRLPQYDLLL+ IGPLVFALLWLLLNRTRWG LIRAATQD Sbjct: 121 PEDLFGPRAPGLAGAVQVLGRRLPQYDLLLMAIGPLVFALLWLLLNRTRWGALIRAATQD 180 Query: 181 REMLGALGVNQAWLFTAVFALGCFLAGLGGALQGPRIPANLALDLDTIGNAFVVVVVGGM 240 REMLGALGVNQAWLFT VFALGCFLAGLGGALQGPR+PANLALDLDTIG AFVVVVVGGM Sbjct: 181 REMLGALGVNQAWLFTGVFALGCFLAGLGGALQGPRLPANLALDLDTIGTAFVVVVVGGM 240 Query: 241 GSLGGAFAAALLIAEVKALCIALGHVSWFGLDISLSRLTLVVEFLVMAAILVLRPWGLLG 300 GS+GGAFAAA+LIAEVKALCIALG VS FG+++SLSRLTLV EFLVMA ILV+RPWGLLG Sbjct: 241 GSIGGAFAAAVLIAEVKALCIALGTVSCFGIELSLSRLTLVAEFLVMAVILVVRPWGLLG 300 Query: 301 KPLALVRSSAAQQAPLRQSSRGARLAGLALMLVLLALPLLAGRLPYLPVLMVEILIAVLF 360 KPLALVR+++ +APLR +S+ R A + L+ LLALPLLAGR PYLPVLMVEIL+AVLF Sbjct: 301 KPLALVRAASHHEAPLRAASQRERWAAMVLLAALLALPLLAGRFPYLPVLMVEILVAVLF 360 Query: 361 AASLHFLLGPGGMVSFGHAAYFGLGAYGAALVSLQWQWPMPLAMLAGALTAMAAAVLFGW 420 AASLHFL+GPGGMVSFGHAAYFGLGAY AALV+L+ QWPMPLAMLAGA TAM AA+LFGW Sbjct: 361 AASLHFLMGPGGMVSFGHAAYFGLGAYAAALVTLRLQWPMPLAMLAGAGTAMLAALLFGW 420 Query: 421 FCVRLSGVYLAMLTLAFAQIVWAAIFQWDDVTGGSNGLVGLRPSELVAAPLAYYYLALGC 480 FCVRLSGVYLAMLTLAFAQIVWAAI+QWDD+TGGSNGLVGLR + +A+PLAYYYLAL C Sbjct: 421 FCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLRTAAALASPLAYYYLALLC 480 Query: 481 AALGVYLLRRVIHAPFGLALRAARDAAVRAESLGMDVRALQWGGFAVAGLFCGLAGVLFA 540 +ALGVYLLRRVIHAPFGLALRAARDA+ RA++LGMDVRALQWGGFA+AGLFCGLAGVLFA Sbjct: 481 SALGVYLLRRVIHAPFGLALRAARDASGRAQALGMDVRALQWGGFALAGLFCGLAGVLFA 540 Query: 541 FSKGSISPEVASVGRSVDGLVMVMLGGVQSLLGPLLGAALFTWLQDLVARETDYWR 596 FSKGSISPEVA V RSVDGLVMV+LGGVQSL GPLLGA++FTWLQDLVARETDYWR Sbjct: 541 FSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPLLGASVFTWLQDLVARETDYWR 596 >gi|300312954|ref|YP_003777046.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 161 bits (407), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 114/297 (38%), Positives = 165/297 (55%), Gaps = 12/297 (4%) Query: 9 QLLNGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGLYVAYSLVDRLGASALGFWA 68 Q+LN L +FL+A+GL+LIFGV VN AHGSF+M + + + ++ FW Sbjct: 8 QVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFM----IGAYVAAVVAGASGSFWL 63 Query: 69 AVLLSALTVAALGALVEVLVLRRIYRAPELFQLLATFALVLVIKDAVLWAWGPEDLFGPR 128 +L++ AALG L+E +V RR+Y+ + Q+LATFA +L+ D V WGP+ L Sbjct: 64 GLLVALPATAALGFLLEWVVFRRLYQKDHMVQVLATFAFILIFNDGVRMIWGPQPLPLNM 123 Query: 129 APGLAGAVHLLGRRLPQYDLLLIFIGPLVFALLWLLLNRTRWGTLIRAATQDREMLGALG 188 AG V+L G Y LL++ +G +V L+ L+NRTR G +RA + EM+ A+G Sbjct: 124 PAAFAGPVNLFGLPYSSYRLLVMAVGVVVAIALYFLINRTRIGMWVRAGANNLEMVTAMG 183 Query: 189 VNQAWLFTAVFALGCFLAGLGGALQGPRIPANLALDLDTIGNAFVVVVVGGMGSLGGAFA 248 +N LF VF+ G LA L G + GP + + D + AFVVVV+GG+GS+ GA Sbjct: 184 INIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAAI 243 Query: 249 AALLIAEVKALCIALGHVSWFGLDISLS-------RLTLVVEFLVMAAILVLRPWGL 298 AL++ V L +L F L +S L ++ +LVM A+L RP GL Sbjct: 244 GALIVGVVDTLGRSL-LPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGL 299 >gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 154 bits (389), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 113/296 (38%), Positives = 173/296 (58%), Gaps = 19/296 (6%) Query: 9 QLLNGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGLYVAYSLVDRLGASALGFWA 68 Q+ NG+ FL+A GLS++FG+ R VNF+HG+F++LG Y+ + + D LGFW Sbjct: 7 QIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCFQVTDL----GLGFWW 62 Query: 69 AVLLSALTVAALGALVEVLVLRRIYRAPELFQLLATFALVLVIKDAVLWAWGPEDLFGPR 128 ++L++ L V +VE VLR +Y P F +L T + LVI++AV+ WGP L Sbjct: 63 SLLIAPLVVGLFAWIVERFVLRHVYALPHHFHILFTVGMALVIQEAVISTWGP--LGNNV 120 Query: 129 APG--LAGAVHLLGRRLPQYDLLLIFIGPLVFALLWLLLNRTRWGTLIRAATQDREMLGA 186 AP L G V G P+Y L +I + ++ LLW +L TR G+++RA ++ EM+ Sbjct: 121 APPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSL 180 Query: 187 LGVNQAWLFTAVFALGCFLAGLGGALQGPRIPANLALDLDTIGNAFVVVVVGGMGSLGGA 246 LG+N +F+ VFALG AGL GAL P A+ + ++ +G AFVVVV+GG+GS GA Sbjct: 181 LGLNINRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVIGGLGSFWGA 240 Query: 247 FAAALLIAEVKALCIALGHVSWFGLDISLSRLTLVVEFLVMAAILVLRPWGLLGKP 302 +L+ V+++ + S ++ ++ MAA+++LRP GLLG+P Sbjct: 241 LIGGILVGIVQSV-----------MSTVWSEGAHLMIYVAMAAVMLLRPNGLLGRP 285 >gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 127 bits (319), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/286 (30%), Positives = 149/286 (52%), Gaps = 14/286 (4%) Query: 16 DASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGLYVAYSLVDRLGASALGFWAAVLLSAL 75 + S +++ GL++IFG+ ++NFAHG+ YMLG ++A+ + LG L +W ++++ + Sbjct: 21 NGSFYAMLSLGLAVIFGLLNVINFAHGTLYMLGAFLAWMGLSYLG---LNYWVMLIVAPI 77 Query: 76 TVAALGALVEVLVLRRIYRAPELFQLLATFALVLVIKDAVLWAWGPEDLFGPRAPGLAGA 135 V A G ++E +LR +Y+ L+ LL TF + L+I+ +G L GA Sbjct: 78 LVGAFGIVIEKTMLRWLYKLDHLYGLLLTFGITLMIEGIFRSIYGVSGQPYSVPDLLQGA 137 Query: 136 VHLLGRRLPQYDLLLIFIGPLVFALLWLLLNRTRWGTLIRAATQDREMLGALGVNQAWLF 195 +L LP Y ++ +V W ++ +TR G +RA T++ +++ A G+N + Sbjct: 138 TNLGFMVLPNYRAWVVVASLIVCFATWFVIEKTRLGAYLRAGTENPKLVEAFGINVPLMV 197 Query: 196 TAVFALGCFLAGLGGALQGPRIPANLALDLDTIGNAFVVVVVGGMGSLGGAFAAALLIAE 255 T + G LA G L P I + + + I F VVV+GGMGS+ G+ L++ Sbjct: 198 TLTYGFGVALAAFAGVLAAPVIQVSPLMGSNLIITVFAVVVIGGMGSILGSIITGLVLGL 257 Query: 256 VKALCIALGHVSWFGLDISLSRLTLVVEFLVMAAILVLRPWGLLGK 301 ++ L + L+ V F++MA +L++RP GL GK Sbjct: 258 IEGLT-----------RVFYPELSATVVFIIMAIVLMVRPAGLFGK 292 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 121 bits (304), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 92/306 (30%), Positives = 149/306 (48%), Gaps = 26/306 (8%) Query: 348 PVLMVEILIAVLFAASLHFLLGPGGMVSFGHAAYFGLGAYGAALVSLQWQWPMPLAMLAG 407 PV ++++L LFA + + L+G G++SFGHAA+ G Y W P L ++ G Sbjct: 23 PVFLMKMLCFALFACAFNLLIGYTGLLSFGHAAFLGWAGYMCGQALKVWGLPTELGLIIG 82 Query: 408 ALTAMAAAVLFGWFCVRLSGVYLAMLTLAFAQIVWAAIFQWDDVTGGSNGLVGLRPSEL- 466 LT ++ G +R G+Y M+TLA AQ+++ Q TGG +GL G+ +L Sbjct: 83 TLTGALIGLVMGLLAIRRQGIYFTMITLALAQMLFFVALQ-APFTGGEDGLQGVPRGKLL 141 Query: 467 ----VAAPLAYYYLALGCAALGVYLLRRVIHAPFGLALRAARDAAVRAESLGMDVRALQW 522 + + + YY+ L A G L+ R IH+PFG L+A ++ RA SLG DV + Sbjct: 142 GFLNLESDMTLYYVVLAIAVAGFALIVRTIHSPFGQVLKAIKENEPRAISLGYDVARYKL 201 Query: 523 GGFAVAGLFCGLAGVLFAFSKGSISPEVASVGRSVDGLV--MVMLGGVQSLLGPLLGAAL 580 F ++ GLAG G + V S+ GLV M ++GG+ ++LGP++GA + Sbjct: 202 LAFVLSAGLSGLAGATKTLVLG--FETLTDVHWSMSGLVVLMTLVGGLGTILGPIVGAVI 259 Query: 581 FTWLQDLVA---------RETDYWRAL-------LGGVILLLVLLFPGGLAGAVQRLRWR 624 L++ + D++ L G + ++ VL F G+ G + L + Sbjct: 260 IIMLENKLGDIGAWLASVTHIDWFNTLGDSVTIVTGFIFIVCVLAFRKGIVGEILALTRK 319 Query: 625 SDGEGA 630 G+ Sbjct: 320 GQASGS 325 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 0.329 0.143 0.442 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: 1,369,596 Number of extensions: 42623 Number of successful extensions: 385 Number of sequences better than 1.0e-08: 33 Number of HSP's gapped: 340 Number of HSP's successfully gapped: 38 Length of query: 630 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 539 Effective length of database: 1,188,985 Effective search space: 640862915 Effective search space used: 640862915 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 133 (55.8 bits)