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= 0486.0013.p (337 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH2321 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type ... 145 1e-34 BMEI0392 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-typ... 135 8e-32 TM0955 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type ... 135 1e-31 BH3731 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type ... 125 8e-29 YPO0859 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 125 1e-28 >BH2321 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 324 Score = 145 bits (365), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 105/307 (34%), Positives = 140/307 (45%), Gaps = 24/307 (7%) Query: 31 PSFMSINTLRDVLIQSSTRVIIALGVAFILITAGTDLSAGRVVGFTAVISASMLQIPDYS 90 P F++ L +++ Q S I+A+GV I+IT G DLS+G ++ +V+ AS Q Sbjct: 42 PHFLTSTNLVNIVRQMSIIGILAIGVTPIIITKGIDLSSGSLIALVSVVVASFAQ----- 96 Query: 91 RRFGSGXXXXXXXXXXXXXXAIVAGLLCGLINGIIVSKLNVPPFIATLGTMLIVYGLNSL 150 + GLL GLING +V+K + PFI TLG M G L Sbjct: 97 ----------GDSIMLPILMGVGVGLLIGLINGTLVAKAMLAPFIVTLGMMTAARGAAML 146 Query: 151 YFDMDPNQSQPIGGLRPDFTKIGSGFIGSGQYSIPYXXXXXXXXXXXXWVLFNKTKLGKN 210 Y D +PIGGL F IG G I + IP WVL NKTK GK Sbjct: 147 YSD-----GRPIGGLNEKFAFIGQGVI----FGIPVPVLIFAFVGIVTWVLLNKTKYGKY 197 Query: 211 MYAIGGNMQAAKVSGINVSKNXXXXXXXXXXXXXXXXVLEAARTGGATNNYGNMYELDAI 270 +YAIGGN QAA +GINVS+ ++ +R G M+ELDAI Sbjct: 198 IYAIGGNEQAAITAGINVSRVKMFVYSYAGLLAGIAGIILTSRISSGQPQAGVMFELDAI 257 Query: 271 AACXXXXXXXXXXXXXXXXXXXXXXXFTLINYGLTFIGISPYYQLIIKGLIIIAAVSFDM 330 A+ ++N GL +G+S Y+Q I+KG II++AV D Sbjct: 258 ASAVIGGTSLFGGIGTVGGTIIGALIIGVMNNGLDLLGVSSYWQQIVKGAIIVSAVYIDT 317 Query: 331 RKYSSKK 337 RK KK Sbjct: 318 RKNRQKK 324 >BMEI0392 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 334 Score = 135 bits (341), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 91/300 (30%), Positives = 139/300 (46%), Gaps = 14/300 (4%) Query: 33 FMSINTLRDVLIQSSTRVIIALGVAFILITAGTDLSAGRVVGFTAVISASMLQIPDYSRR 92 F++ + +VL+Q+S I+A+G+ F+++T G DLS G VV ++SAS Sbjct: 45 FLTAGNISNVLLQTSINGILAIGMTFVILTRGIDLSVGSVVALAGIVSASFATTSAM--- 101 Query: 93 FGSGXXXXXXXXXXXXXXAIVAGLLCGLINGIIVSKLNVPPFIATLGTMLIVYGLNSLYF 152 +G ++ G+ CG + G IVS+ VP F+ATLG + GL +Y Sbjct: 102 --AGIAGAPYSPFIAICVGLLVGIGCGALVGTIVSRFAVPAFVATLGMLSAARGLTLIY- 158 Query: 153 DMDPNQSQPIGGLRPDFTKIGSGFIGSGQYSIPYXXXXXXXXXXXXWVLFNKTKLGKNMY 212 +P+ L PDF IG+G I +P W + N+++ G+ +Y Sbjct: 159 ----GGGKPVPALVPDFRWIGTGNI----LGVPVPVILLAIVFLVSWWILNRSRFGRYIY 210 Query: 213 AIGGNMQAAKVSGINVSKNXXXXXXXXXXXXXXXXVLEAARTGGATNNYGNMYELDAIAA 272 A+GGN AA SGIN+S+ ++ +ARTG A G YELDAIAA Sbjct: 211 AVGGNPHAANTSGINISRVRFSVYVISGGLAGLAGMILSARTGSALPQAGISYELDAIAA 270 Query: 273 CXXXXXXXXXXXXXXXXXXXXXXXFTLINYGLTFIGISPYYQLIIKGLIIIAAVSFDMRK 332 ++N GL +GI YYQ ++KG +I+ AV D ++ Sbjct: 271 VVIGGTSLSGGIGRITGTLIGALIIGVMNNGLDLMGIQSYYQQVLKGALIVGAVMLDQKR 330 >TM0955 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 331 Score = 135 bits (339), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 92/294 (31%), Positives = 137/294 (46%), Gaps = 12/294 (4%) Query: 33 FMSINTLRDVLIQSSTRVIIALGVAFILITAGTDLSAGRVVGFTAVISASMLQIPDYSRR 92 F+++ +L Q++ + IA+G+ F+++T G DLS G ++GF+ ++A +L+ Sbjct: 39 FLTLENFWIILRQTAVNLCIAVGMTFVILTGGIDLSVGSILGFSGAVTAKLLKYGLILSA 98 Query: 93 FGSGXXXXXXXXXXXXXXAIVAGLLCGLINGIIVSKLNVPPFIATLGTMLIVYGLNSLYF 152 FG ++AG GL NG I+++ N+PPF+ATLGTM V G F Sbjct: 99 FG---VVLKFNPLGASIIGVLAGFAIGLFNGFIITRFNIPPFVATLGTMTAVRG-----F 150 Query: 153 DMDPNQSQPIGGLRPDFTKIGSGFIGSGQYSIPYXXXXXXXXXXXXWVLFNKTKLGKNMY 212 M + PI L F IGSG+ IP + KT+ G+ +Y Sbjct: 151 IMLLTKGHPITRLGDSFDFIGSGWF----LGIPMPVWIAAIATGVGIFILRKTQFGRYVY 206 Query: 213 AIGGNMQAAKVSGINVSKNXXXXXXXXXXXXXXXXVLEAARTGGATNNYGNMYELDAIAA 272 A+GGN +AA +SG+N ++ AR A N G MYELDAIAA Sbjct: 207 AVGGNEKAAVLSGVNSKLTKLWVYAISGILSAVAGLIVTARLDSAQPNAGLMYELDAIAA 266 Query: 273 CXXXXXXXXXXXXXXXXXXXXXXXFTLINYGLTFIGISPYYQLIIKGLIIIAAV 326 ++N GL +G+SP++Q + KG IIIAAV Sbjct: 267 TVIGGASLSGGKGTLIGTVVGALIIGVLNDGLVLVGVSPFWQQVAKGFIIIAAV 320 >BH3731 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 314 Score = 125 bits (314), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 88/305 (28%), Positives = 140/305 (45%), Gaps = 25/305 (8%) Query: 30 EPSFMSINTLRDVLIQSSTRVIIALGVAFILITAGTDLSAGRVVGFTAVISASMLQIPDY 89 P F+S++ + +VL Q S +IA G+ F+++T G DLS G ++ ++ ++A ++ Sbjct: 31 NPDFLSLSNIMNVLRQVSINALIAFGMTFVILTGGIDLSVGAILALSSAVTAWLM----- 85 Query: 90 SRRFGSGXXXXXXXXXXXXXXAIVAGLLCGLINGIIVSKLNVPPFIATLGTMLIVYGLNS 149 ++AG L G ING+++SK V PFIATL TM I GL Sbjct: 86 ---------VNSVDPILAVLIGLLAGTLFGAINGLVISKGKVAPFIATLATMTIYRGLTL 136 Query: 150 LYFDMDPNQSQPIGGLRPD--FTKIGSGFIGSGQYSIPYXXXXXXXXXXXXWVLFNKTKL 207 ++ D +PI G F +G G+ + IP +++ KT Sbjct: 137 VFTD-----GRPISGFESSTMFEMLGRGYF----FGIPVPAVTMIISFIILYLILKKTTF 187 Query: 208 GKNMYAIGGNMQAAKVSGINVSKNXXXXXXXXXXXXXXXXVLEAARTGGATNNYGNMYEL 267 G+ +YA+GGN +AA +SGI V + ++ +R A G+MYEL Sbjct: 188 GRRVYAVGGNQEAAILSGIKVDRIKIYVYSLTGFLSALAGMILTSRLYSAQPTAGSMYEL 247 Query: 268 DAIAACXXXXXXXXXXXXXXXXXXXXXXXFTLINYGLTFIGISPYYQLIIKGLIIIAAVS 327 DAIAA ++N GL +G+S ++Q ++KG +I+ AV Sbjct: 248 DAIAAVVLGGTSLTGGRGWIVGTLIGALIIGVLNNGLNLLGVSSFFQQVVKGSVILLAVL 307 Query: 328 FDMRK 332 D RK Sbjct: 308 LDRRK 312 >YPO0859 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 336 Score = 125 bits (314), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 94/305 (30%), Positives = 135/305 (44%), Gaps = 24/305 (7%) Query: 30 EPSFMSINTLRDVLIQSSTRVIIALGVAFILITAGTDLSAGRVVGFTAVISASMLQIPDY 89 E F+S + +L Q S I+A+G+ F++ITAG DLS G V+G +++A Sbjct: 46 ENYFLSRDNTLIILRQVSINGILAIGMTFVIITAGVDLSVGAVLGLAGIVAA-------- 97 Query: 90 SRRFGSGXXXXXXX-----XXXXXXXAIVAGLLCGLINGIIVSKLNVPPFIATLGTMLIV 144 RF + AI GL+CG ING I+ K + PFI T+G + + Sbjct: 98 --RFATNNSAIALGGTDWPLLVPIVIAIGIGLVCGAINGFILGKYRLQPFIVTMGMLSVA 155 Query: 145 YGLNSLYFDMDPNQSQPIGGLRPDFTKIGSGFIGSGQYSIPYXXXXXXXXXXXXWVLFNK 204 GL L P+ L +F +G+G+I IP W + NK Sbjct: 156 RGLTLL-----TTGGNPVSQLTDEFRWLGNGYI----LGIPVPVLIFIILFAIAWFVLNK 206 Query: 205 TKLGKNMYAIGGNMQAAKVSGINVSKNXXXXXXXXXXXXXXXXVLEAARTGGATNNYGNM 264 G+ +YA+GGN ++A+ SGINV + ++ ARTG A G Sbjct: 207 MTFGRYVYAVGGNEKSARTSGINVLRIKVAVYTLCGILAAIAGLILTARTGSAQTGAGVS 266 Query: 265 YELDAIAACXXXXXXXXXXXXXXXXXXXXXXXFTLINYGLTFIGISPYYQLIIKGLIIIA 324 YELDAIAA ++N GL +G+ YYQ IIKG++I+ Sbjct: 267 YELDAIAAVVIGGTSMAGGIGTLRGTLFGVLIIGVMNNGLDLLGVQSYYQQIIKGVLIVF 326 Query: 325 AVSFD 329 AV D Sbjct: 327 AVMLD 331 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.322 0.139 0.397 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 17,068,205 Number of extensions: 505083 Number of successful extensions: 1330 Number of sequences better than 1.0e-05: 89 Number of HSP's gapped: 1146 Number of HSP's successfully gapped: 94 Length of query: 337 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 230 Effective length of database: 26,037,693 Effective search space: 5988669390 Effective search space used: 5988669390 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 116 (49.3 bits)