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= 0269.0007.p (209 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value TM0955 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type ... 86 3e-17 BMEI0392 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-typ... 74 2e-13 mll3597 [R] COG4158 Predicted ABC-type sugar transport system, p... 73 3e-13 mll1013 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 68 1e-11 YPO0859 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 67 1e-11 >TM0955 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 331 Score = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 58/163 (35%), Positives = 80/163 (49%), Gaps = 1/163 (0%) Query: 1 MVAGRGIAQLITGGQIITVTSTKYAYIGSGSLAALPFSIFXXXXXXXXXXXXXXXXXXXX 60 M A RG L+T G IT + +IGSG +P ++ Sbjct: 144 MTAVRGFIMLLTKGHPITRLGDSFDFIGSGWFLGIPMPVWIAAIATGVGIFILRKTQFGR 203 Query: 61 FIESVGCNPAASKMSGIRAHLVILAVYVFXXXXXXXXXXXXSSNVSSADGNNAGLWYELD 120 ++ +VG N A+ +SG+ + L L VY ++ + SA NAGL YELD Sbjct: 204 YVYAVGGNEKAAVLSGVNSKLTKLWVYAISGILSAVAGLIVTARLDSAQ-PNAGLMYELD 262 Query: 121 AILAVVIGGTSLNGGRFYLTGTVIGALIIQTLTTTIYMIGVPP 163 AI A VIGG SL+GG+ L GTV+GALII L + ++GV P Sbjct: 263 AIAATVIGGASLSGGKGTLIGTVVGALIIGVLNDGLVLVGVSP 305 >BMEI0392 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 334 Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 54/159 (33%), Positives = 79/159 (49%), Gaps = 1/159 (0%) Query: 3 AGRGIAQLITGGQIITVTSTKYAYIGSGSLAALPFSIFXXXXXXXXXXXXXXXXXXXXFI 62 A RG+ + GG+ + + +IG+G++ +P + +I Sbjct: 150 AARGLTLIYGGGKPVPALVPDFRWIGTGNILGVPVPVILLAIVFLVSWWILNRSRFGRYI 209 Query: 63 ESVGCNPAASKMSGIRAHLVILAVYVFXXXXXXXXXXXXSSNVSSADGNNAGLWYELDAI 122 +VG NP A+ SGI V +VYV S+ SA AG+ YELDAI Sbjct: 210 YAVGGNPHAANTSGINISRVRFSVYVISGGLAGLAGMILSARTGSAL-PQAGISYELDAI 268 Query: 123 LAVVIGGTSLNGGRFYLTGTVIGALIIQTLTTTIYMIGV 161 AVVIGGTSL+GG +TGT+IGALII + + ++G+ Sbjct: 269 AAVVIGGTSLSGGIGRITGTLIGALIIGVMNNGLDLMGI 307 >mll3597 [R] COG4158 Predicted ABC-type sugar transport system, permease component Length = 330 Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 4/163 (2%) Query: 1 MVAGRGIAQLITGGQIITVTSTK--YAYIGSGSLAALPFSIFXXXXXXXXXXXXXXXXXX 58 + A RG+A+L+ GQ TV ++ + +IG+GSL +P+ + Sbjct: 140 LTAVRGVARLL--GQDTTVFNSDLPFDFIGNGSLFGIPWLVVIALSVVVLSWLVLKRTVL 197 Query: 59 XXFIESVGCNPAASKMSGIRAHLVILAVYVFXXXXXXXXXXXXSSNVSSADGNNAGLWYE 118 +I +VG N A++++GI+ LV+L VY ++ + +A+G G YE Sbjct: 198 GAWIYAVGGNAEAARLTGIKVPLVLLFVYGVSGLLAGLGGAMSAARLYAANGLQLGQSYE 257 Query: 119 LDAILAVVIGGTSLNGGRFYLTGTVIGALIIQTLTTTIYMIGV 161 LDAI AV++GGTS GG + GT+IG LII L+ + + GV Sbjct: 258 LDAIAAVILGGTSFVGGVGSIWGTLIGGLIIAVLSNGLILAGV 300 >mll1013 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 331 Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/165 (32%), Positives = 80/165 (48%), Gaps = 3/165 (1%) Query: 1 MVAGRGIAQLITGGQIITV--TSTKYAYIGSGSLAALPFSIFXXXXXXXXXXXXXXXXXX 58 +V GRGIA I G+ T+ S ++Y+GSG L +P I+ Sbjct: 142 LVMGRGIAMTIANGEPKTLGDASDAFSYLGSGFLFGIPVPIWIFVAIAAVAFVVLRHTPF 201 Query: 59 XXFIESVGCNPAASKMSGIRAHLVILAVYVFXXXXXXXXXXXXSSNVSSADGNNAGLWYE 118 I +VG N A++++GI V+++VY S ++ + AG E Sbjct: 202 GRQIYAVGSNTEAARLAGINVPRVLMSVYAISGVLSALTALVFVSRLTVGE-PTAGTNLE 260 Query: 119 LDAILAVVIGGTSLNGGRFYLTGTVIGALIIQTLTTTIYMIGVPP 163 L+AI VVIGGTSL GG + GTVIGA II + + ++G+ P Sbjct: 261 LEAISIVVIGGTSLFGGEGGVIGTVIGAAIIAVMANILNLLGISP 305 >YPO0859 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 336 Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 47/157 (29%), Positives = 76/157 (48%), Gaps = 1/157 (0%) Query: 5 RGIAQLITGGQIITVTSTKYAYIGSGSLAALPFSIFXXXXXXXXXXXXXXXXXXXXFIES 64 RG+ L TGG ++ + ++ ++G+G + +P + ++ + Sbjct: 156 RGLTLLTTGGNPVSQLTDEFRWLGNGYILGIPVPVLIFIILFAIAWFVLNKMTFGRYVYA 215 Query: 65 VGCNPAASKMSGIRAHLVILAVYVFXXXXXXXXXXXXSSNVSSADGNNAGLWYELDAILA 124 VG N +++ SGI + +AVY ++ SA AG+ YELDAI A Sbjct: 216 VGGNEKSARTSGINVLRIKVAVYTLCGILAAIAGLILTARTGSAQ-TGAGVSYELDAIAA 274 Query: 125 VVIGGTSLNGGRFYLTGTVIGALIIQTLTTTIYMIGV 161 VVIGGTS+ GG L GT+ G LII + + ++GV Sbjct: 275 VVIGGTSMAGGIGTLRGTLFGVLIIGVMNNGLDLLGV 311 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 0.321 0.135 0.390 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: 11,256,920 Number of extensions: 301797 Number of successful extensions: 737 Number of sequences better than 1.0e-05: 55 Number of HSP's gapped: 693 Number of HSP's successfully gapped: 55 Length of query: 209 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 107 Effective length of database: 26,614,363 Effective search space: 2847736841 Effective search space used: 2847736841 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: 113 (48.1 bits)