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= 0263.0006.p (337 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AGc3488 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 88 2e-17 BH3731 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type ... 86 1e-16 AGl1078 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 84 3e-16 RSc1015 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type... 80 3e-15 rbsC [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type tr... 77 4e-14 >AGc3488 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 326 Score = 88.2 bits (217), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 122/233 (52%), Gaps = 5/233 (2%) Query: 40 LVIVVFAILTGGDLLSGFNLRTIIKQLAVLFTISVGMVFIFSHGGMDISVGAVMALSSMT 99 L++ VF + LS N I+ Q+ VL ++VGM F+ GG+D+SVG+V+ALS M Sbjct: 31 LMLCVFLTFASENFLSLRNGLNILDQITVLGIMAVGMTFVILLGGIDLSVGSVLALSMMI 90 Query: 100 AVYTLN-AGAPLAVGILAAVAVSVICYLLNVLIAIQFGLMSVISSLSIMFIARGLVTYNV 158 +T N AG P+ + I+ A+ S C L+ ++ F + + I++L++M +ARGL + Sbjct: 91 MGWTANVAGMPMGMAIVLALVASAACGLVVGILVTAFRVPAFIATLAMMSVARGLANM-I 149 Query: 159 STTTEKLGVMDAEQLKLLGRNIPFLLIFLTAVGLIGIVLFHYTKIGKHNR---AVGDNPL 215 + + +G D + + R+ L + + ++ +V + + + R AVG NP Sbjct: 150 TDGQQIVGFPDWFMMLAIERHFGVLTATVLLMLVVVLVSWAFLRFRSEGRTVYAVGGNPE 209 Query: 216 AAMQSGVQVKKAKITGYALAGVLVGFASILSLARSTVISENTGSGMEMDVIVA 268 A +G+ V I Y + VL G A I+ AR + ++G G E+D I A Sbjct: 210 VARLAGINVPLVTICVYVVCAVLAGLAGIVLAARLDSVQPSSGFGYELDTIAA 262 >BH3731 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 314 Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 86/300 (28%), Positives = 151/300 (50%), Gaps = 15/300 (5%) Query: 25 LKNNKNTLIQYAGLALVIVVFAILTGGDLLSGFNLRTIIKQLAVLFTISVGMVFIFSHGG 84 +K+ T+ + GL ++++ + L D LS N+ +++Q+++ I+ GM F+ GG Sbjct: 7 IKSLLTTIGPFIGLFFIVLIISFLNP-DFLSLSNIMNVLRQVSINALIAFGMTFVILTGG 65 Query: 85 MDISVGAVMALSS-MTAVYTLNAGAPL---AVGILAAVAVSVICYLLNVLIAIQFGLMSV 140 +D+SVGA++ALSS +TA +N+ P+ +G+LA I N L+ + + Sbjct: 66 IDLSVGAILALSSAVTAWLMVNSVDPILAVLIGLLAGTLFGAI----NGLVISKGKVAPF 121 Query: 141 ISSLSIMFIARGLVTYNVSTTTEKLGVMDAEQLKLLGR----NIPFLLIFLTAVGLIGIV 196 I++L+ M I RGL T + G + ++LGR IP + + +I + Sbjct: 122 IATLATMTIYRGL-TLVFTDGRPISGFESSTMFEMLGRGYFFGIPVPAVTMIISFIILYL 180 Query: 197 LFHYTKIGKHNRAVGDNPLAAMQSGVQVKKAKITGYALAGVLVGFASILSLARSTVISEN 256 + T G+ AVG N AA+ SG++V + KI Y+L G L A ++ +R Sbjct: 181 ILKKTTFGRRVYAVGGNQEAAILSGIKVDRIKIYVYSLTGFLSALAGMILTSRLYSAQPT 240 Query: 257 TGSGMEMDVIVAXXXXXXXXXXXXKAKMSSAIVGSITYILLNNGLVMVGVATEVVSLVKG 316 GS E+D I A + + ++G++ +LNNGL ++GV++ +VKG Sbjct: 241 AGSMYELDAI-AAVVLGGTSLTGGRGWIVGTLIGALIIGVLNNGLNLLGVSSFFQQVVKG 299 >AGl1078 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 134 Score = 84.0 bits (206), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 0/265 (0%), Positives = 0/265 (0%), Gaps = 11/265 (4%) Query: 58 NLRTIIKQLAVLFTISVGMVFIFSHGGMDISVGAVMAL-SSMTAVYTLNAGAPLAVGILA 116 + A F+ + S + G+ + A A AV + Sbjct: 54 LQKLAQAVAAEGFSGIQINKALSSIDAHQETSGSGRIQTLRVVARQKGAAVRIDAVFNIQ 113 Query: 117 AVAVSVICYLLNVLIAIQFGLMSVISSLSIMFIARGLV-----TYNVSTTTEKLGVMDAE 171 Sbjct: 114 173 Query: 172 QLKLLGRNIPFLLIFLTAVGLIGIVLFHYTKIGKHNRAVGDNPLAAMQSGVQVKKAKITG 231 Sbjct: 174 ---- 229 Query: 232 YALAGVLVGFASILSLARSTVISENTGSGMEMDVIVAXXXXXXXXXXXXKAKMSSAIVGS 291 Sbjct: 230 - 288 Query: 292 ITYILLNNGLVMVGVATEVVSLVKG 316 Sbjct: 289 313 >RSc1015 [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 348 Score = 80.5 bits (197), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 66/208 (31%), Positives = 102/208 (49%), Gaps = 1/208 (0%) Query: 62 IIKQLAVLFTISVGMVFIFSHGGMDISVGAVMALS-SMTAVYTLNAGAPLAVGILAAVAV 120 I ++ L ++VGM F+ GG+D+SVG+V+ALS SM ++ G LA L V Sbjct: 71 IANEIPDLLVMAVGMTFVLMIGGIDLSVGSVLALSASMLSIAMTRFGWGLAPAALLGVLA 130 Query: 121 SVICYLLNVLIAIQFGLMSVISSLSIMFIARGLVTYNVSTTTEKLGVMDAEQLKLLGRNI 180 + L + +++G+ S I SL ++ +ARGL + T LG + I Sbjct: 131 ATAAGALTGTVTVRWGIPSFIVSLGVLEMARGLAYSLTDSRTVYLGAAVDWLATPIALGI 190 Query: 181 PFLLIFLTAVGLIGIVLFHYTKIGKHNRAVGDNPLAAMQSGVQVKKAKITGYALAGVLVG 240 + A+ +IG V+ T G++ A+G N A +GV KI +AL G L G Sbjct: 191 APSFLIAIAITVIGQVVLVRTVFGRYLVAIGTNEEAVRLAGVNPHPYKIAVFALMGWLSG 250 Query: 241 FASILSLARSTVISENTGSGMEMDVIVA 268 A++ ++R N G GME+ VI A Sbjct: 251 LAALFQVSRLEAADPNAGGGMELQVIAA 278 >rbsC [G] COG1172 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components Length = 321 Score = 77.0 bits (188), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 74/267 (27%), Positives = 133/267 (49%), Gaps = 10/267 (3%) Query: 58 NLRTIIKQLAVLFTISVGMVFIFSHGGMDISVGAVMALSSMTAVYTLNAGAPLAVGILAA 117 NL I++Q +V ++VGM + G+D+SVG+++AL+ A + V + AA Sbjct: 45 NLFNILQQTSVNAIMAVGMTLVILTSGIDLSVGSLLALTGAVAASIVGIEVNALVAVAAA 104 Query: 118 VAVSVICYLLNVLIAIQFGLMSVISSLSIMFIARGLVTYNVSTTTEKLGVMD-AEQLKLL 176 +A+ + +I + + + I++L +M + RG+ + + G + A+ Sbjct: 105 LALGAAIGAVTGVIVAKGRVQAFIATLVMMLLLRGVTMVYTNGSPVNTGFTENADLFGWF 164 Query: 177 GRNIPFLLIFLTAVGLIGIV------LFHYTKIGKHNRAVGDNPLAAMQSGVQVKKAKIT 230 G P L T V ++GIV + H+T++G++ A+G N A SG+ V K KI Sbjct: 165 GIGRP--LGVPTPVWIMGIVFLAAWYMLHHTRLGRYIYALGGNEAATRLSGINVNKIKII 222 Query: 231 GYALAGVLVGFASILSLARSTVISENTGSGMEMDVIVAXXXXXXXXXXXXKAKMSSAIVG 290 Y+L G+L A I+ +AR + G+G E+D I A K ++ ++G Sbjct: 223 VYSLCGLLASLAGIIEVARLSSAQPTAGTGYELDAI-AAVVLGGTSLAGGKGRIVGTLIG 281 Query: 291 SITYILLNNGLVMVGVATEVVSLVKGI 317 ++ LNNGL ++GV++ +VK + Sbjct: 282 ALILGFLNNGLNLLGVSSYYQMIVKAV 308 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 0.137 0.370 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: 20,243,666 Number of extensions: 738647 Number of successful extensions: 2452 Number of sequences better than 1.0e-05: 104 Number of HSP's gapped: 2346 Number of HSP's successfully gapped: 108 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)