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= 0008.0128.p (304 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312954|ref|YP_003777046.1| amino acid ABC transporter perm... 537 e-154 gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC t... 161 7e-41 gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC t... 157 1e-39 gi|300313286|ref|YP_003777378.1| branched-chain amino acid ABC t... 145 4e-36 gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 133 2e-32 >gi|300312954|ref|YP_003777046.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 537 bits (1383), Expect = e-154, Method: Compositional matrix adjust. Identities = 297/304 (97%), Positives = 301/304 (99%) Query: 1 LGNLIFEQVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGS 60 +GNLIFEQVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGS Sbjct: 1 MGNLIFEQVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGS 60 Query: 61 FWLGLLVALPATAALGFLLEWLVFRRLYKKDHMVHVLATFAFILIFNDGVRMIWGPQPLP 120 FWLGLLVALPATAALGFLLEW+VFRRLY+KDHMV VLATFAFILIFNDGVRMIWGPQPLP Sbjct: 61 FWLGLLVALPATAALGFLLEWVVFRRLYQKDHMVQVLATFAFILIFNDGVRMIWGPQPLP 120 Query: 121 LNMPPAFAGPVNLFGLPYSSYRLLVMAVGVVVAVALYLLINRTRIGMWVRAGANNLEMVT 180 LNMP AFAGPVNLFGLPYSSYRLLVMAVGVVVA+ALY LINRTRIGMWVRAGANNLEMVT Sbjct: 121 LNMPAAFAGPVNLFGLPYSSYRLLVMAVGVVVAIALYFLINRTRIGMWVRAGANNLEMVT 180 Query: 181 AMGINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPG 240 AMGINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPG Sbjct: 181 AMGINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPG 240 Query: 241 AAIGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLF 300 AAIGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLF Sbjct: 241 AAIGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLF 300 Query: 301 PART 304 PART Sbjct: 301 PART 304 >gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 161 bits (407), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 98/281 (34%), Positives = 163/281 (58%), Gaps = 18/281 (6%) Query: 21 LIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASG-SFWLGLLVALPATAALGFLL 79 +++ GL +IFG++N +N AHG+ +M+GA++A + G ++W+ L+VA A G ++ Sbjct: 27 MLSLGLAVIFGLLNVINFAHGTLYMLGAFLAWMGLSYLGLNYWVMLIVAPILVGAFGIVI 86 Query: 80 EWLVFRRLYKKDHMVHVLATFAFILIFNDGVRMIWGPQPLPLNMPPAFAGPVNLFGLPYS 139 E + R LYK DH+ +L TF L+ R I+G P ++P G NL + Sbjct: 87 EKTMLRWLYKLDHLYGLLLTFGITLMIEGIFRSIYGVSGQPYSVPDLLQGATNLGFMVLP 146 Query: 140 SYRLLVMAVGVVVAVALYLLINRTRIGMWVRAGANNLEMVTAMGINIRLLFRLVFSFGLL 199 +YR V+ ++V A + +I +TR+G ++RAG N ++V A GIN+ L+ L + FG+ Sbjct: 147 NYRAWVVVASLIVCFATWFVIEKTRLGAYLRAGTENPKLVEAFGINVPLMVTLTYGFGVA 206 Query: 200 LAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAAIGALIVGVVDTLGRSLL 259 LAA AG++ P++ V MG +++I F VVVIGG+GS+ G+ I L++G+++ L R Sbjct: 207 LAAFAGVLAAPVIQVSPLMGSNLIITVFAVVVIGGMGSILGSIITGLVLGLIEGLTRVFY 266 Query: 260 PQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLF 300 P+L A +++++M VL RP+GLF Sbjct: 267 PELSA-----------------TVVFIIMAIVLMVRPAGLF 290 >gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 157 bits (397), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 107/297 (36%), Positives = 163/297 (54%), Gaps = 17/297 (5%) Query: 3 NLIFEQVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGSFW 62 N+ Q+ N + G++ FL+A GL+++FG++ FVN +HG+FF++GAY+ V FW Sbjct: 2 NIYLLQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCFQVTDLGLGFW 61 Query: 63 LGLLVALPATAALGFLLEWLVFRRLYKKDHMVHVLATFAFILIFNDGVRMIWGPQPLPLN 122 LL+A +++E V R +Y H H+L T L+ + V WGP + Sbjct: 62 WSLLIAPLVVGLFAWIVERFVLRHVYALPHHFHILFTVGMALVIQEAVISTWGPLGNNVA 121 Query: 123 MPPAFAGPVNLFGLPYSSYRLLVMAVGVVVAVALYLLINRTRIGMWVRAGANNLEMVTAM 182 P G V G Y YRL V+ + V+A+ L+ ++ TR+G VRAG+ + EMV+ + Sbjct: 122 PPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSLL 181 Query: 183 GINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAA 242 G+NI +F LVF+ G A LAG + P+ MG + L +AFVVVVIGG+GS GA Sbjct: 182 GLNINRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVIGGLGSFWGAL 241 Query: 243 IGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGL 299 IG ++VG+V ++ ++V +MIY+ M AV+ RP+GL Sbjct: 242 IGGILVGIVQSV-----------------MSTVWSEGAHLMIYVAMAAVMLLRPNGL 281 >gi|300313286|ref|YP_003777378.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 145 bits (366), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 100/294 (34%), Positives = 158/294 (53%), Gaps = 18/294 (6%) Query: 11 NSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGSFWLGLL-VAL 69 + + +G +LFLI+ GL++ G+MNF+NLAHG+F M+G YV + G +L L +A Sbjct: 11 DGIAYGSLLFLISVGLSVTMGMMNFINLAHGAFAMLGGYVCVTLLNGMGVPFLATLPLAF 70 Query: 70 PATAALGFLLEWLVFRRLYKKDHMVHVLATFAFILIFNDGVRMIWGPQPLPLNMPPAFAG 129 A A +G +LE ++RRLYK H+ VL + + G WGP P+ +P G Sbjct: 71 IAAAIVGLVLERSLYRRLYKASHLDQVLFSIGLTFMAVAGATWQWGPTQQPVVLPDWLRG 130 Query: 130 PVNLFGLPYSSYRLLVMAVGVVVAVALYLLINRTRIGMWVRAGANNLEMVTAMGINIRLL 189 ++L GL +YR+ ++ V V+V VAL LLI RTR G +RA +N +GIN+ + Sbjct: 131 QISLLGLEVGAYRVFLIGVVVIVTVALGLLIERTRFGAQIRASVDNQVAAAGLGINVSRV 190 Query: 190 FRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAAIGALIVG 249 F L F+ G LA L G + ++ + ++ +VV +GG G++ G + ALI+G Sbjct: 191 FSLTFALGSGLAGLGGGLGIDVLGLDPTFPVKYMVYFLLVVAVGGAGTIKGPLLAALILG 250 Query: 250 VVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGLFPAR 303 V D G+ +P+ +G+ +IY +M+ +L P+GL R Sbjct: 251 VFDVAGKYYVPE-----------------IGAFVIYGLMVVLLILFPAGLMRRR 287 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 90/224 (40%), Positives = 128/224 (57%), Gaps = 4/224 (1%) Query: 8 QVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGS----FWL 63 Q+LN L +F++A+GL+LIFGV VN AHGSF+M+G Y+A + G+ +W Sbjct: 9 QLLNGLADASAMFMVAAGLSLIFGVTRIVNFAHGSFYMLGLYLAYSLVDRLGATPWGYWA 68 Query: 64 GLLVALPATAALGFLLEWLVFRRLYKKDHMVHVLATFAFILIFNDGVRMIWGPQPLPLNM 123 LL+A AALG L+E + RR+Y+ + +LATFA +L+ D WGP+ L Sbjct: 69 ALLLAALPVAALGALVELTILRRIYRAPELFQLLATFALVLVIKDAALWYWGPEDLFGPR 128 Query: 124 PPAFAGPVNLFGLPYSSYRLLVMAVGVVVAVALYLLINRTRIGMWVRAGANNLEMVTAMG 183 P AG V + G Y LL+MA+G +V L+LL+NRTR G +RA + EM+ A+G Sbjct: 129 APGLAGAVQVLGRRLPQYDLLLMAIGPLVFALLWLLLNRTRWGALIRAATQDREMLGALG 188 Query: 184 INIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAF 227 +N LF VF+ G LA L G + GP + + D + AF Sbjct: 189 VNQAWLFTGVFALGCFLAGLGGALQGPRLPANLALDLDTIGTAF 232 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 0.332 0.146 0.443 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: 676,258 Number of extensions: 20361 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 25 Number of HSP's gapped: 181 Number of HSP's successfully gapped: 25 Length of query: 304 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 219 Effective length of database: 1,217,395 Effective search space: 266609505 Effective search space used: 266609505 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 130 (54.7 bits)