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= 0193.0019.p (388 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value PA2092 [G] COG2814 Arabinose efflux permease 261 1e-69 BS_ydhL [G] COG2814 Arabinose efflux permease 256 6e-68 STM0257 [G] COG2814 Arabinose efflux permease 189 8e-48 BS_ybcL [G] COG2814 Arabinose efflux permease 186 4e-47 AGl1145 [G] COG2814 Arabinose efflux permease 178 1e-44 >PA2092 [G] COG2814 Arabinose efflux permease Length = 397 Score = 261 bits (667), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 157/353 (44%), Positives = 214/353 (60%) Query: 5 VWILTIAAFVVGTVELVIAGIIEMIAQDLQVSVAAAGQLVTVYSLVFALGSPVIISLTAN 64 VW+L AFVVGTVELV+AG+++ +A VS AG L+++Y+LV+AL P+++ L+A Sbjct: 13 VWLLAGLAFVVGTVELVVAGVLDELAASFAVSQGRAGLLMSLYALVYALLGPLLVYLSAG 72 Query: 65 MERRRLLIIAMCVFFAGNILSIISPNFTLLLISRVVLAASCSXXXXXXXXXXXXXXPQAL 124 +ERRRLL A+ VF N+ S +P+F LLL SR+++AAS S Sbjct: 73 IERRRLLAGALLVFVGANLASAAAPSFALLLASRLLVAASASVIVVVAITLAVAIVAPER 132 Query: 125 KGRAIGIIFMGLSAALMLGVPLGTWIGDRWGWRMTFXXXXXXXXXXXXCVQRFLPKTPPQ 184 +GRAIG++F G+ A+L+LGVPLGT IG+ WGWR F + R LP P Sbjct: 133 RGRAIGLVFAGIVASLVLGVPLGTLIGEFWGWRSLFLLLAGVALLGLPLLLRLLPAIPGA 192 Query: 185 PSVSLRTQLGTLKSSKILSVHLVSILQMTGQFTIYAYITPYLQTTMGLSAPIISLVLLVY 244 P ++ QL L ++ HL S+LQMTGQFT+Y YI P+L +M L P ISLVLLVY Sbjct: 193 PGIAPAEQLRALARGRVPFAHLASLLQMTGQFTVYTYIVPFLVGSMALDKPTISLVLLVY 252 Query: 245 GLXXXXXXXXXXXXXDKLGPRKTIILTLVLHAAAILLLPYAVSNLFSLLLVVAVWCTFNM 304 G D+ T + L+LHA A++LLP+A L LL V WC FNM Sbjct: 253 GGGGILGALLGGRAADRWPGPATFVAFLLLHALALVLLPFATGGLPLLLGAVVFWCVFNM 312 Query: 305 APSPAIQSYLIETAPESADIQLSFNTSSLHIGVALGSMIGGFVVSQYSISVNP 357 AP PAIQ YL+E +P++A IQ+S NTS++ +GVALG+ IG +V Q ++ P Sbjct: 313 APGPAIQKYLVELSPDTAAIQISLNTSAIQLGVALGAFIGAILVDQVAVRALP 365 >BS_ydhL [G] COG2814 Arabinose efflux permease Length = 125 Score = 256 bits (653), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 0/336 (0%), Positives = 0/336 (0%) Query: 15 VGTVELVIAGIIEMIAQDLQVSVAAAGQLVTVYSLVFALGSPVIISLTANMERRRLLIIA 74 I + + + G + R L Sbjct: 52 EFFPVQSPCRGICQSDERGFCRGCFRSRDERFNWNKMSDGEKQEVLRLCRQRLMRKLRAN 111 Query: 75 MCVFFAGNILSIISPNFTLLLISRVVLAASCSXXXXXXXXXXXXXXPQALKGRAIGIIFM 134 Sbjct: 112 171 Query: 135 GLSAALMLGVPLGTWIGDRWGWRMTFXXXXXXXXXXXXCVQRFLPKTPPQPSVSLRTQLG 194 Sbjct: 172 231 Query: 195 TLKSSKILSVHLVSILQMTGQFTIYAYITPYLQTTMGLSAPIISLVLLVYGLXXXXXXXX 254 Sbjct: 232 291 Query: 255 XXXXXDKLGPRKTIILTLVLHAAAILLLPYAVSNLFSLLLVVAVWCTFNMAPSPAIQSYL 314 Sbjct: 292 351 Query: 315 IETAPESADIQLSFNTSSLHIGVALGSMIGGFVVSQ 350 Sbjct: 352 387 >STM0257 [G] COG2814 Arabinose efflux permease Length = 391 Score = 189 bits (479), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 116/364 (31%), Positives = 190/364 (52%), Gaps = 9/364 (2%) Query: 1 MDRRVWILTIAAFVVGTVELVIAGIIEMIAQDLQVSVAAAGQLVTVYSLVFALGSPVIIS 60 M ++ LTI+AF +GT E VI G++ IAQ L +S+ +AG LV++Y+L A+G+PV+ + Sbjct: 1 MPLALFALTISAFAIGTTEFVIVGLVPTIAQQLAISLPSAGMLVSIYALGVAIGAPVLTA 60 Query: 61 LTANMERRRLLIIAMCVFFAGNILSIISPNFTLLLISRVVLAASCSXXXXXXXXXXXXXX 120 LT + R++LL+ M +F AGN+L+ +P + L+++R++ + Sbjct: 61 LTGRLPRKQLLVALMVLFTAGNLLAWQAPGYMTLIVARLLTGLAHGVFFSIGSTIATSLV 120 Query: 121 PQALKGRAIGIIFMGLSAALMLGVPLGTWIGDRWGWRMTFXXXXXXXXXXXXCVQRFLPK 180 P+ AI I+F GL+ AL+ GVPLGT+IG +GWR TF Q +P Sbjct: 121 PKEKAASAIAIMFGGLTVALVTGVPLGTFIGQHFGWRETFLAVSLLGVIALMSSQLLIPA 180 Query: 181 T-PPQPSVSLRTQLGTLKSSKILSVHLVSILQMTGQFTIYAYITPYLQTTMGLSAPIISL 239 P + + S+R Q+ L ++L ++ V+ L G FT + ++ P +Q G S +S Sbjct: 181 NIPGRAAASIRDQVKVLTHPRLLLIYAVTALGYGGVFTAFTFLAPMMQDLAGFSPAAVSW 240 Query: 240 VLLVYGLXXXXXXXXXXXXXDKLGPRKTIILTLVLHAAAILLLPYAV--SNLFSLLLVVA 297 +LL YG+ DK G L + A +LL+ + V S ++ L + Sbjct: 241 ILLGYGVSVAIGNIWGGKLADKHGAVPA--LKFIFAALFVLLMVFQVTASTQYAALATIL 298 Query: 298 VWCTFNMAPSPAIQSYLIETA----PESADIQLSFNTSSLHIGVALGSMIGGFVVSQYSI 353 V F P +Q Y+++ A P + D+ N ++ +IG+ALGS+IGG V Y + Sbjct: 299 VMGVFAFGNVPGLQVYVVQKAEQFTPNAVDVASGLNIAAFNIGIALGSVIGGQTVEHYGL 358 Query: 354 SVNP 357 + P Sbjct: 359 AQTP 362 >BS_ybcL [G] COG2814 Arabinose efflux permease Length = 183 Score = 186 bits (473), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 0/351 (0%), Positives = 0/351 (0%) Query: 4 RVWILTIAAFVVGTVELVIAGIIEMIAQDLQVSVAAAGQLVTVYSLVFALGSPVIISLTA 63 +L F + + L S +G + +L + T Sbjct: 6 VSTVLAFITFSAQAAAFQVTSNEIKTGEQLTTSHVFSGFGCEGGNTSPSLTWSGVPEGTK 65 Query: 64 NMERRRLLIIAMCVFFAGNILSIISPNFTLLLISRVVLAASCSXXXXXXXXXXXXXXPQA 123 + A + + P L Sbjct: 66 SFAVTVYDPDAPTGSGWWHWTVVNIPATVTYLPVDAGRRDGTKLPTGAVQGRNDFGYAGF 125 Query: 124 LKGRAIGIIFMGLSAALMLGVPLGTWIGDRWGWRMTFXXXXXXXXXXXXCVQRFLPKTPP 183 Sbjct: 126 185 Query: 184 QPSVSLRTQLGTLKSSKILSVHLVSILQMTGQFTIYAYITPYLQTTMGLSAPIISLVLLV 243 Sbjct: 186 245 Query: 244 YGLXXXXXXXXXXXXXDKLGPRKTIILTLVLHAAAILLLPYAVSNLFSLLLVVAVWCTFN 303 Sbjct: 246 305 Query: 304 MAPSPAIQSYLIETAPESADIQLSFNTSSLHIGVALGSMIGGFVVSQYSIS 354 Sbjct: 306 356 >AGl1145 [G] COG2814 Arabinose efflux permease Length = 134 Score = 178 bits (452), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 0/356 (0%), Positives = 0/356 (0%), Gaps = 8/356 (2%) Query: 1 MDRRVWILTIAAFVVGTVELVIAGIIEMIAQDLQVSVAAAGQLVTVYSLVFALGSPVIIS 60 + A V + ++++ V+ Sbjct: 39 YKSFQELPKAKAPAVLQKLAQAVAAEGFSGIQINKALSSIDAHQETSGSGRIQTLRVVAR 98 Query: 61 LTANMERRRLLIIAMCVFFAGNILSIISPNFTLLLISRVVLAASCSXXXXXXXXXXXXXX 120 Sbjct: 99 158 Query: 121 PQALKGRAIGIIFMGLSAALMLGVPLGTWIGDRWGWRMTFXXXXXXXXXXXXCVQRFLPK 180 Sbjct: 159 218 Query: 181 T-PPQPSVSLRTQLGTLKSSKILSVHLVSILQMTGQFTIYAYITPYLQTTMGLSAPIISL 239 Sbjct: 219 278 Query: 240 VLLVYGLXXXXXXXXXXXXXDKLGPRKTIILTLVLHAAAILLLPY-AVSNLFSLLLVVAV 298 Sbjct: 279 - 337 Query: 299 WCTFNMAPSPAIQSYLIETA----PESADIQLSFNTSSLHIGVALGSMIGGFVVSQ 350 Sbjct: 338 - 392 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 0.326 0.138 0.401 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: 20,995,381 Number of extensions: 714869 Number of successful extensions: 2635 Number of sequences better than 1.0e-05: 67 Number of HSP's gapped: 2488 Number of HSP's successfully gapped: 67 Length of query: 388 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 280 Effective length of database: 25,922,359 Effective search space: 7258260520 Effective search space used: 7258260520 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: 117 (49.7 bits)