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= 0013.0013.p (296 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease ... 597 e-172 gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease ... 95 5e-21 gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease ... 89 4e-19 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 82 5e-17 gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease ... 79 5e-16 >gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 597 bits (1538), Expect = e-172, Method: Compositional matrix adjust. Identities = 296/296 (100%), Positives = 296/296 (100%) Query: 1 MNKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQDIISPEQKVFVGLDWFREVMRDG 60 MNKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQDIISPEQKVFVGLDWFREVMRDG Sbjct: 1 MNKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQDIISPEQKVFVGLDWFREVMRDG 60 Query: 61 ELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLVILAMPLLIPWNVVGTIW 120 ELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLVILAMPLLIPWNVVGTIW Sbjct: 61 ELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLVILAMPLLIPWNVVGTIW 120 Query: 121 QIFGRADIGLGGYVLNLLGIDYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLRSIPD 180 QIFGRADIGLGGYVLNLLGIDYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLRSIPD Sbjct: 121 QIFGRADIGLGGYVLNLLGIDYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLRSIPD 180 Query: 181 AYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT 240 AYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT Sbjct: 181 AYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT 240 Query: 241 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGNHANASGGQHE 296 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGNHANASGGQHE Sbjct: 241 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGNHANASGGQHE 296 >gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 292 Score = 95.1 bits (235), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 127/256 (49%), Gaps = 6/256 (2%) Query: 2 NKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQD-IISPEQKVFVGLDWFREVMRDG 60 N+ + + F+ P L + ++P + +N ++++ ++ +V L +M D Sbjct: 3 NRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMSDR 62 Query: 61 ELHAALLRQLIFSFCVLLVQIPLGIGLALAM---PHKGWKSSATLVILAMPLLIPWNVVG 117 A+ ++ +L + +GI +A+ + H W+ A V+L P+L+P Sbjct: 63 RFLNAIEVSAVWEVVTVLGAVIVGIAIAVYLFENVHGKWRQ-AMCVLLITPVLLPRVSAA 121 Query: 118 TIWQIFGRADIGLGGYVLNLLGI-DYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLR 176 IW+ G+ G++L L+GI D + S+P A V L+D+W W A++ L Sbjct: 122 FIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLE 181 Query: 177 SIPDAYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPG 236 ++P +AA++D A W V+ YI LP ++G L+ V ++ ++S + +V+T GGPG Sbjct: 182 TLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPG 241 Query: 237 NSTTFLSQYLTQKAVG 252 +T L Y + +G Sbjct: 242 VATETLDMYAYAQGIG 257 >gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 71/263 (26%), Positives = 131/263 (49%), Gaps = 18/263 (6%) Query: 25 IIPLMTVVNYSVQ--DIISPEQKVFVGLDWFREVMRDGELHAALLRQLIFSFCVLLVQIP 82 I+PL + +SV ++++P+Q FVGL+ + +++D ++ + VL + + Sbjct: 56 IVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVI 115 Query: 83 LGIGLAL--AMPHKGWKSSATLVILAMPLLIPWNVVGTIWQ-IFGRADIGLGGYVLNLLG 139 G LA+ P +G + LVI P + V IW+ + G+ YV+ LG Sbjct: 116 GGTLLAVLFDQPFRGRGIARLLVI--GPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLG 173 Query: 140 IDYNYASNPLD-----AWLTVLLMDVWHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRW 194 ++ P+D L+V+++ W W P L+ L+S+ +AAQ+DGA Sbjct: 174 LE------PIDWLAEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPV 227 Query: 195 AVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQF 254 +F YI LP ++ + + +++ + ++ E F T GGPG +TT L+ + + QF Sbjct: 228 RIFFYIVLPHLKRAITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQF 287 Query: 255 DLGPAAAFSLIYFLIILLLSFVL 277 D+G A+A + ++ ++SF L Sbjct: 288 DIGIASAGGIFAVVLANIVSFFL 310 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 82.0 bits (201), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 122/240 (50%), Gaps = 5/240 (2%) Query: 44 QKVFVGLDWFREVMRDGELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLV 103 + F+GLD F + D +L + ++ +++ LG+ LA+ + + Sbjct: 48 EGSFIGLDNFTYLAGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRA 107 Query: 104 ILAMPLLIPWNVVGTIWQIFGRADIGLGGYVLNLLG-IDY--NYASNPLDAWLTVLLMDV 160 I+ +P ++P + + A + + L+ +G ID ++ +P +A + + +V Sbjct: 108 IVLLPWIVPTALSALAFWWLYDAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANV 167 Query: 161 WHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDS 220 W P VA+ AGL++I + Y+AA IDGA+ W FR++ LP + ++ + + + + Sbjct: 168 WRGIPFVAISLLAGLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFT 227 Query: 221 FMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNW 280 F + +VLT GGP N+T ++ Q+A+ LG AA L ++I LL+ +++++ Sbjct: 228 FTDFQLIYVLTRGGPLNATHLMATLSFQRAIPGGALGEGAA--LATYMIPFLLAAIMFSY 285 >gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 79.0 bits (193), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/271 (26%), Positives = 130/271 (47%), Gaps = 14/271 (5%) Query: 15 PVFLTVAFSAIIPLMTVVNYSVQDIISPEQKVFVGLDWFREVMRDGELHAALLRQL---I 71 P L A + +PL+ + + FVGLD +R ++ D + AA + + Sbjct: 15 PAVLIYALFSALPLLDTLRLGFYTANDAGVRSFVGLDNYRTILFDPDWSAAFWNAMWNNV 74 Query: 72 FSFCV-LLVQIPLGIGLALAMPHKGWKSSATL-VILAMPLLIPWNVVGTIWQIFGRADIG 129 FC+ + +Q P+G+ LA KG + + T ++ +P L+ ++G IWQ+ G Sbjct: 75 KFFCIHMALQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVIIGFIWQLILSPLWG 134 Query: 130 LGGYVLNLLGIDYNYA---SNPLDAWLTVLLMDVWHWTPLVALLAFAGLRSIPDAYYQAA 186 +G +L +G+ +A A LT+ L+ VW + + +L +A L ++P+ +AA Sbjct: 135 VGEKLLGTVGLADWFAPWLGQESTALLTLSLISVWQYVGIPMMLIYAALLAVPEEVLEAA 194 Query: 187 QIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTG--GGPGNSTTFLSQ 244 +GAS +F I+LP + L + +L F+ +F + + + G GP ++ L Sbjct: 195 HAEGASAMRIFWQIKLPLIYPTLGLVTILTFVANFNAFDLIYSVKGALAGPNYASDLLGT 254 Query: 245 YLTQKAVG-QFDLGP---AAAFSLIYFLIIL 271 Y + G Q +G AA + + FL+IL Sbjct: 255 YFYRTFFGYQAQIGSPTMGAAVATLMFLVIL 285 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 0.328 0.142 0.455 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: 944,928 Number of extensions: 39662 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 10 Length of query: 296 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 211 Effective length of database: 1,217,395 Effective search space: 256870345 Effective search space used: 256870345 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 (21.7 bits) S2: 130 (54.7 bits)