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= 0002.0452.p (613 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... 768 0.0 gi|300312954|ref|YP_003777046.1| amino acid ABC transporter perm... 157 2e-39 gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC t... 147 2e-36 gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 130 4e-31 gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC t... 130 4e-31 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 768 bits (1984), Expect = 0.0, Method: Compositional matrix adjust. Identities = 439/594 (73%), Positives = 509/594 (85%) Query: 4 MTFSSLAVQLINGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGVFIAYTLVSLIG 63 MT +SLAVQL+NGLADASAMF+VAAGLSLIFGVTRIVNFAHGSFYMLG+++AY+LV +G Sbjct: 1 MTLASLAVQLLNGLADASAMFMVAAGLSLIFGVTRIVNFAHGSFYMLGLYLAYSLVDRLG 60 Query: 64 ASGVGFWSAVLLSACAVALLGALVEITILRRIYRAPELFQLLATFAVVLVLKDAALYLWG 123 A+ G+W+A+LL+A VA LGALVE+TILRRIYRAPELFQLLATFA+VLV+KDAAL+ WG Sbjct: 61 ATPWGYWAALLLAALPVAALGALVELTILRRIYRAPELFQLLATFALVLVIKDAALWYWG 120 Query: 124 PEDLFGPRAPGLAGSVELLGRRLPQYDLVLIVIGPVVLGLLWLLLNRTRWGTLIRAATQD 183 PEDLFGPRAPGLAG+V++LGRRLPQYDL+L+ IGP+V LLWLLLNRTRWG LIRAATQD Sbjct: 121 PEDLFGPRAPGLAGAVQVLGRRLPQYDLLLMAIGPLVFALLWLLLNRTRWGALIRAATQD 180 Query: 184 REMAGALGINQSWLFTGVFALGCFLAGLGGALQGPRMPATLALDLETIGNAFVVVVVGGM 243 REM GALG+NQ+WLFTGVFALGCFLAGLGGALQGPR+PA LALDL+TIG AFVVVVVGGM Sbjct: 181 REMLGALGVNQAWLFTGVFALGCFLAGLGGALQGPRLPANLALDLDTIGTAFVVVVVGGM 240 Query: 244 GSIGGAFLAALLIAEIKALCVAFGQVSIAGVAVSLSKLTLVAEFLVMALILVLRPWGLLG 303 GSIGGAF AA+LIAE+KALC+A G VS G+ +SLS+LTLVAEFLVMA+ILV+RPWGLLG Sbjct: 241 GSIGGAFAAAVLIAEVKALCIALGTVSCFGIELSLSRLTLVAEFLVMAVILVVRPWGLLG 300 Query: 304 KPQVANRVAGPPEAPLRPANTMQRRLGLAGLVLLLAAPLLAGSFPYLSVLLVEILIAVLF 363 KP R A EAPLR A+ +R + L LLA PLLAG FPYL VL+VEIL+AVLF Sbjct: 301 KPLALVRAASHHEAPLRAASQRERWAAMVLLAALLALPLLAGRFPYLPVLMVEILVAVLF 360 Query: 364 AASLHFIMGPGGMHSFGHAAYFGLGAYAAALVLTGLRLPMEIALIAGPLAGAFGALLFGW 423 AASLHF+MGPGGM SFGHAAYFGLGAYAAALV L+ PM +A++AG ALLFGW Sbjct: 361 AASLHFLMGPGGMVSFGHAAYFGLGAYAAALVTLRLQWPMPLAMLAGAGTAMLAALLFGW 420 Query: 424 FCVRLSGVYLAMLTLAFAQIVWAIVFQWDEFTGGSNGLVGIWPSAWAASPTAFYYLALAF 483 FCVRLSGVYLAMLTLAFAQIVWA ++QWD+ TGGSNGLVG+ +A ASP A+YYLAL Sbjct: 421 FCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLRTAAALASPLAYYYLALLC 480 Query: 484 SVAGVLLLRRVLFAPFGYAMRAGRDSSLRAEAIGIDVKRVQWMAFIVAGLFCGMAGALFA 543 S GV LLRRV+ APFG A+RA RD+S RA+A+G+DV+ +QW F +AGLFCG+AG LFA Sbjct: 481 SALGVYLLRRVIHAPFGLALRAARDASGRAQALGMDVRALQWGGFALAGLFCGLAGVLFA 540 Query: 544 FSKGSISPEAISVSRSVDGLVMVMLGGIQTLFGPVAGAAVFTWLQDVVAXGSGH 597 FSKGSISPE V+RSVDGLVMV+LGG+Q+L GP+ GA+VFTWLQD+VA + + Sbjct: 541 FSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPLLGASVFTWLQDLVARETDY 594 >gi|300312954|ref|YP_003777046.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 157 bits (398), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 97/251 (38%), Positives = 144/251 (57%), Gaps = 4/251 (1%) Query: 12 QLINGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGVFIAYTLVSLIGASGVGFWS 71 Q++N L +FL+A+GL+LIFGV VN AHGSF+M I + +++ + FW Sbjct: 8 QVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFM----IGAYVAAVVAGASGSFWL 63 Query: 72 AVLLSACAVALLGALVEITILRRIYRAPELFQLLATFAVVLVLKDAALYLWGPEDLFGPR 131 +L++ A A LG L+E + RR+Y+ + Q+LATFA +L+ D +WGP+ L Sbjct: 64 GLLVALPATAALGFLLEWVVFRRLYQKDHMVQVLATFAFILIFNDGVRMIWGPQPLPLNM 123 Query: 132 APGLAGSVELLGRRLPQYDLVLIVIGPVVLGLLWLLLNRTRWGTLIRAATQDREMAGALG 191 AG V L G Y L+++ +G VV L+ L+NRTR G +RA + EM A+G Sbjct: 124 PAAFAGPVNLFGLPYSSYRLLVMAVGVVVAIALYFLINRTRIGMWVRAGANNLEMVTAMG 183 Query: 192 INQSWLFTGVFALGCFLAGLGGALQGPRMPATLALDLETIGNAFVVVVVGGMGSIGGAFL 251 IN LF VF+ G LA L G + GP + + + + AFVVVV+GG+GS+ GA + Sbjct: 184 INIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAAI 243 Query: 252 AALLIAEIKAL 262 AL++ + L Sbjct: 244 GALIVGVVDTL 254 >gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 147 bits (372), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 108/300 (36%), Positives = 175/300 (58%), Gaps = 19/300 (6%) Query: 11 VQLINGLADASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGVFIAYTLVSLIGASGVGFW 70 +Q+ NG+ FL+A GLS++FG+ R VNF+HG+F++LG ++ + + L G+GFW Sbjct: 6 LQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCFQVTDL----GLGFW 61 Query: 71 SAVLLSACAVALLGALVEITILRRIYRAPELFQLLATFAVVLVLKDAALYLWGP--EDLF 128 ++L++ V L +VE +LR +Y P F +L T + LV+++A + WGP ++ Sbjct: 62 WSLLIAPLVVGLFAWIVERFVLRHVYALPHHFHILFTVGMALVIQEAVISTWGPLGNNVA 121 Query: 129 GPRAPGLAGSVELLGRRLPQYDLVLIVIGPVVLGLLWLLLNRTRWGTLIRAATQDREMAG 188 P L G V G P+Y L +I + V+ LLW +L TR G+++RA ++ EM Sbjct: 122 PPDL--LQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVS 179 Query: 189 ALGINQSWLFTGVFALGCFLAGLGGALQGPRMPATLALDLETIGNAFVVVVVGGMGSIGG 248 LG+N + +F+ VFALG AGL GAL P A + +E +G AFVVVV+GG+GS G Sbjct: 180 LLGLNINRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVIGGLGSFWG 239 Query: 249 AFLAALLIAEIKALCVAFGQVSIAGVAVSLSKLTLVAEFLVMALILVLRPWGLLGKPQVA 308 A + +L+ ++++ ++ S+ + ++ MA +++LRP GLLG+P A Sbjct: 240 ALIGGILVGIVQSV-----------MSTVWSEGAHLMIYVAMAAVMLLRPNGLLGRPGAA 288 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 130 bits (326), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 88/251 (35%), Positives = 135/251 (53%), Gaps = 12/251 (4%) Query: 347 FPYLSVLLVEILIAVLFAASLHFIMGPGGMHSFGHAAYFGLGAYAAALVLTGLRLPMEIA 406 F V L+++L LFA + + ++G G+ SFGHAA+ G Y L LP E+ Sbjct: 19 FGIYPVFLMKMLCFALFACAFNLLIGYTGLLSFGHAAFLGWAGYMCGQALKVWGLPTELG 78 Query: 407 LIAGPLAGAFGALLFGWFCVRLSGVYLAMLTLAFAQIVWAIVFQWDEFTGGSNGLVGIWP 466 LI G L GA L+ G +R G+Y M+TLA AQ+++ + Q FTGG +GL G+ P Sbjct: 79 LIIGTLTGALIGLVMGLLAIRRQGIYFTMITLALAQMLFFVALQ-APFTGGEDGLQGV-P 136 Query: 467 SAW------AASPTAFYYLALAFSVAGVLLLRRVLFAPFGYAMRAGRDSSLRAEAIGIDV 520 S YY+ LA +VAG L+ R + +PFG ++A +++ RA ++G DV Sbjct: 137 RGKLLGFLNLESDMTLYYVVLAIAVAGFALIVRTIHSPFGQVLKAIKENEPRAISLGYDV 196 Query: 521 KRVQWMAFIVAGLFCGMAGALFAFSKGSISPEAISVSRSVDGLV--MVMLGGIQTLFGPV 578 R + +AF+++ G+AGA G V S+ GLV M ++GG+ T+ GP+ Sbjct: 197 ARYKLLAFVLSAGLSGLAGATKTLVLG--FETLTDVHWSMSGLVVLMTLVGGLGTILGPI 254 Query: 579 AGAAVFTWLQD 589 GA + L++ Sbjct: 255 VGAVIIIMLEN 265 >gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 130 bits (326), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 87/288 (30%), Positives = 151/288 (52%), Gaps = 14/288 (4%) Query: 19 DASAMFLVAAGLSLIFGVTRIVNFAHGSFYMLGVFIAYTLVSLIGASGVGFWSAVLLSAC 78 + S +++ GL++IFG+ ++NFAHG+ YMLG F+A+ +S +G + +W ++++ Sbjct: 21 NGSFYAMLSLGLAVIFGLLNVINFAHGTLYMLGAFLAWMGLSYLG---LNYWVMLIVAPI 77 Query: 79 AVALLGALVEITILRRIYRAPELFQLLATFAVVLVLKDAALYLWGPEDLFGPRAPGLAGS 138 V G ++E T+LR +Y+ L+ LL TF + L+++ ++G L G+ Sbjct: 78 LVGAFGIVIEKTMLRWLYKLDHLYGLLLTFGITLMIEGIFRSIYGVSGQPYSVPDLLQGA 137 Query: 139 VELLGRRLPQYDLVLIVIGPVVLGLLWLLLNRTRWGTLIRAATQDREMAGALGINQSWLF 198 L LP Y ++V +V W ++ +TR G +RA T++ ++ A GIN + Sbjct: 138 TNLGFMVLPNYRAWVVVASLIVCFATWFVIEKTRLGAYLRAGTENPKLVEAFGINVPLMV 197 Query: 199 TGVFALGCFLAGLGGALQGPRMPATLALDLETIGNAFVVVVVGGMGSIGGAFLAALLIAE 258 T + G LA G L P + + + I F VVV+GGMGSI G+ + L++ Sbjct: 198 TLTYGFGVALAAFAGVLAAPVIQVSPLMGSNLIITVFAVVVIGGMGSILGSIITGLVLGL 257 Query: 259 IKALCVAFGQVSIAGVAVSLSKLTLVAEFLVMALILVLRPWGLLGKPQ 306 I+ L F +L+ F++MA++L++RP GL GK + Sbjct: 258 IEGLTRVF-----------YPELSATVVFIIMAIVLMVRPAGLFGKEK 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 0.329 0.143 0.438 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: 1,580,565 Number of extensions: 57611 Number of successful extensions: 437 Number of sequences better than 1.0e-08: 33 Number of HSP's gapped: 385 Number of HSP's successfully gapped: 39 Length of query: 613 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 522 Effective length of database: 1,188,985 Effective search space: 620650170 Effective search space used: 620650170 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)