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= 0232.0022.p (401 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_ytbD [G] COG2814 Arabinose efflux permease 458 e-129 AGl1145 [G] COG2814 Arabinose efflux permease 320 4e-87 SMb20071 [G] COG2814 Arabinose efflux permease 314 2e-85 RSc1153 [G] COG2814 Arabinose efflux permease 291 2e-78 STM0257 [G] COG2814 Arabinose efflux permease 276 6e-74 >BS_ytbD [G] COG2814 Arabinose efflux permease Length = 396 Score = 458 bits (1178), Expect = e-129, Method: Compositional matrix adjust. Identities = 239/395 (60%), Positives = 278/395 (70%) Query: 1 MSLDRKKSTXXXXXXXISAFAIGTTEFISVGLLPLISDDLHISVTTAGLTVTLYALGVTF 60 M+ K + +SAFAIGTTEFISVGLLPLI+DDL I VTTAGLTV+LYALGVTF Sbjct: 1 MTSANKSNIPALLALAVSAFAIGTTEFISVGLLPLIADDLDIPVTTAGLTVSLYALGVTF 60 Query: 61 GAPVLTSLTTAISRKTXXXXXXXXFIAGNSLAAAAGGISMLLAARILSALSHGLFMSIAS 120 GAP+LTSLT+++SRKT FIAGN++AA A I +LLAAR++SA SHG+FMSI S Sbjct: 61 GAPILTSLTSSMSRKTLLLWIMFIFIAGNTMAATASSIGILLAARVISAFSHGVFMSIGS 120 Query: 121 TIAADLVTEDRRASAISMMFTGLTVATVTGVPLGTFLGQQLGWRXXXXXXXXXXXXXXXX 180 TIAAD+V ED+RASAIS+MFTGLTVATVTGVP GTF+GQQ GWR Sbjct: 121 TIAADIVPEDKRASAISIMFTGLTVATVTGVPFGTFIGQQFGWRFAFMVIIAVGIIAFIT 180 Query: 181 XXXXXXXXXRKGTRTPLREQVKLVTNGRLLLAFAITALGYGGTFVVFTYLSPLLHEISGF 240 RKGT+T +R+Q+KLVTN RLLL F ITALGYGGTFVVFTYLSPLL E++GF Sbjct: 181 NGILVPSKLRKGTKTTMRDQLKLVTNSRLLLLFVITALGYGGTFVVFTYLSPLLQEVTGF 240 Query: 241 QEQTVAVILLVYXXXXXXXXXXXXXXXNRKPLNALFYMFAFQAAVLLVLTFTAPFKAAAL 300 + TVAVILL Y NR P+ ALFYMF QA VL VLTFTAP++AA L Sbjct: 241 KAGTVAVILLGYGIAIAIGNMIGGKLSNRNPIAALFYMFIVQAIVLFVLTFTAPYQAAGL 300 Query: 301 ITIFFMGLLAFMNVPGLQVYVVMLADRFAPSARDVASXXXXXXXXXXXXXXXXXXXXVTD 360 ITI MGLLAFMNVPGLQVYVVMLA+RF PSA DVAS +TD Sbjct: 301 ITILCMGLLAFMNVPGLQVYVVMLAERFVPSAVDVASAMNIAAFNAGIALGSYLGGVITD 360 Query: 361 HLGLVHTPWIGSIMVLGAVVLTAWSRALENRDGRK 395 +GL+HT WIG +MV+GAV+LT WSR +E RD ++ Sbjct: 361 SIGLIHTAWIGGLMVVGAVILTGWSRLMEKRDRQE 395 >AGl1145 [G] COG2814 Arabinose efflux permease Length = 134 Score = 320 bits (819), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 0/383 (0%), Positives = 0/383 (0%), Gaps = 1/383 (0%) Query: 17 ISAFAIGTTEFISVGLLPLISDDLHISVTTAGLTVTLYALGVTFGAPVLTSLTTAISRKT 76 A A+ +V ++ ++++ G V+ A R Sbjct: 48 AKAPAVLQKLAQAVAAEGFSGIQINKALSSIDAHQETSGSGRIQTLRVVARQKGAAVRID 107 Query: 77 XXXXXXXXFIAGNSLAAAAGGISMLLAARILSALSHGLFMSIASTIAADLVTEDRRASAI 136 Sbjct: 108 167 Query: 137 SMMFTGLTVATVTGVPLGTFLGQQLGWRXXXXXXXXXXXXXXXXXXXXXXXXXRKGTRTP 196 Sbjct: 168 227 Query: 197 LREQVKLVTNGRLLLAFAITALGYGGTFVVFTYLSPLLHEISGFQEQTVAVILLVYXXXX 256 Sbjct: 228 287 Query: 257 XXXXXXXXXXXNRKPLNALFYMFAFQAAVLLVLTFTAPFKAAALITIFFMGLLAFMNVPG 316 Sbjct: 288 347 Query: 317 LQVYVVMLADRFAPSARDVASXXXXXXXXXXXXXXXXXXXXVTDH-LGLVHTPWIGSIMV 375 Sbjct: 348 407 Query: 376 LGAVVLTAWSRALENRDGRKLQS 398 Sbjct: 408 430 >SMb20071 [G] COG2814 Arabinose efflux permease Length = 397 Score = 314 bits (804), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 176/376 (46%), Positives = 232/376 (61%), Gaps = 1/376 (0%) Query: 17 ISAFAIGTTEFISVGLLPLISDDLHISVTTAGLTVTLYALGVTFGAPVLTSLTTAISRKT 76 I+A+AIGTTEF+ VGLLP ++ DL I++ AGL V++YALGVTFGAPVLT+LT I RK Sbjct: 10 IAAYAIGTTEFVIVGLLPTVATDLAITLPLAGLIVSVYALGVTFGAPVLTALTGRIERKP 69 Query: 77 XXXXXXXXFIAGNSLAAAAGGISMLLAARILSALSHGLFMSIASTIAADLVTEDRRASAI 136 FI GN+ AA + +LL AR+LSA +HG+F S+ STIAADLV E+RRASAI Sbjct: 70 LLLGLMALFIGGNTAAALSPNYEVLLVARVLSAFAHGVFFSVGSTIAADLVPENRRASAI 129 Query: 137 SMMFTGLTVATVTGVPLGTFLGQQLGWRXXXXXXXXXXXXXXXXXXXXXXXXXRKGTRTP 196 +MMF GLTVA VTGVP+GT++GQ GWR K Sbjct: 130 AMMFMGLTVAIVTGVPIGTYIGQVFGWRATFWGVSGLGVVAFAGIATLLPGTLAKAAPAS 189 Query: 197 LREQVKLVTNGRLLLAFAITALGYGGTFVVFTYLSPLLHEISGFQEQTVAVILLVYXXXX 256 L +QV+++ +GRLL+ FA+TALGYGGTFV FT+L+P+L E++GF E++V++IL++Y Sbjct: 190 LLDQVRVLGSGRLLIVFAMTALGYGGTFVAFTFLAPILQEVTGFSERSVSLILVLYGVAI 249 Query: 257 XXXXXXXXXXXNRKPLNALFYMFAFQAAVLLVLTFTAPFKAAALITIFFMGLLAFMNVPG 316 N P+ AL +F QA VL++ +FTA L+T+ +G L+F NVPG Sbjct: 250 AIGNIAGGRIANTNPVKALIGLFLLQALVLVIFSFTAVSPVLTLVTLAALGFLSFANVPG 309 Query: 317 LQVYVVMLADRFAPSARDVASXXXXXXXXXXXXXXXXXXXXVTDH-LGLVHTPWIGSIMV 375 LQ+YVV LA P A DVAS V D GL TPW+G+I+V Sbjct: 310 LQLYVVQLAMEHRPGAVDVASALNIAAFNLGIALGAWLGGMVVDSPFGLSATPWVGAILV 369 Query: 376 LGAVVLTAWSRALENR 391 GA++LT WS L+ R Sbjct: 370 SGALLLTLWSGVLDRR 385 >RSc1153 [G] COG2814 Arabinose efflux permease Length = 400 Score = 291 bits (744), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 167/378 (44%), Positives = 224/378 (59%), Gaps = 1/378 (0%) Query: 17 ISAFAIGTTEFISVGLLPLISDDLHISVTTAGLTVTLYALGVTFGAPVLTSLTTAISRKT 76 +SAFAIGTTEF+ VGL+P ++ DL I++ +AG V+LYALGV GAPVLT+LT + RK Sbjct: 10 LSAFAIGTTEFVIVGLIPTVAADLGITLPSAGWLVSLYALGVAVGAPVLTALTGRLPRKA 69 Query: 77 XXXXXXXXFIAGNSLAAAAGGISMLLAARILSALSHGLFMSIASTIAADLVTEDRRASAI 136 F GN LA A G + L+ AR+++ L+HG+F SI ST+A LV ++ ASAI Sbjct: 70 LLLALMALFTLGNLLAWRAPGYAPLVLARVMTGLAHGVFFSIGSTLATSLVPREKAASAI 129 Query: 137 SMMFTGLTVATVTGVPLGTFLGQQLGWRXXXXXXXXXXXXXXXXXXXXXXXXXRKGTRTP 196 ++MFTGLTVA VTGVPLGTF+GQ GWR Sbjct: 130 AIMFTGLTVALVTGVPLGTFIGQHFGWRETFLAVAGLGVIAFVGSLVFVPRDIAHAPPAS 189 Query: 197 LREQVKLVTNGRLLLAFAITALGYGGTFVVFTYLSPLLHEISGFQEQTVAVILLVYXXXX 256 L Q++++ RLL+ +A TA+GYGG+F+ FT+L+P+L +++GF V ++LVY Sbjct: 190 LARQLQVLAQPRLLMVYAKTAIGYGGSFIPFTFLAPILQDVAGFSAGAVGWVMLVYGVSV 249 Query: 257 XXXXXXXXXXXNRK-PLNALFYMFAFQAAVLLVLTFTAPFKAAALITIFFMGLLAFMNVP 315 +RK P+ AL +FA AAVL TFTA + A+ T+ G +AF NVP Sbjct: 250 AAGNLWGGRLADRKGPIAALQVIFALLAAVLFAFTFTARYPWTAVATVLLWGAVAFGNVP 309 Query: 316 GLQVYVVMLADRFAPSARDVASXXXXXXXXXXXXXXXXXXXXVTDHLGLVHTPWIGSIMV 375 GLQ YVV A+RFAP A DVAS + HLGL+HTPWIG+++V Sbjct: 310 GLQAYVVKQAERFAPQAVDVASGLNIAAFNLGIAGAAWAGGWIVTHLGLMHTPWIGALVV 369 Query: 376 LGAVVLTAWSRALENRDG 393 L ++ LTAWS AL+ R G Sbjct: 370 LVSLGLTAWSGALDRRGG 387 >STM0257 [G] COG2814 Arabinose efflux permease Length = 391 Score = 276 bits (705), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 164/375 (43%), Positives = 218/375 (58%), Gaps = 1/375 (0%) Query: 17 ISAFAIGTTEFISVGLLPLISDDLHISVTTAGLTVTLYALGVTFGAPVLTSLTTAISRKT 76 ISAFAIGTTEF+ VGL+P I+ L IS+ +AG+ V++YALGV GAPVLT+LT + RK Sbjct: 10 ISAFAIGTTEFVIVGLVPTIAQQLAISLPSAGMLVSIYALGVAIGAPVLTALTGRLPRKQ 69 Query: 77 XXXXXXXXFIAGNSLAAAAGGISMLLAARILSALSHGLFMSIASTIAADLVTEDRRASAI 136 F AGN LA A G L+ AR+L+ L+HG+F SI STIA LV +++ ASAI Sbjct: 70 LLVALMVLFTAGNLLAWQAPGYMTLIVARLLTGLAHGVFFSIGSTIATSLVPKEKAASAI 129 Query: 137 SMMFTGLTVATVTGVPLGTFLGQQLGWRXXXXXXXXXXXXXXXXXXXXXXXXXRKGTRTP 196 ++MF GLTVA VTGVPLGTF+GQ GWR Sbjct: 130 AIMFGGLTVALVTGVPLGTFIGQHFGWRETFLAVSLLGVIALMSSQLLIPANIPGRAAAS 189 Query: 197 LREQVKLVTNGRLLLAFAITALGYGGTFVVFTYLSPLLHEISGFQEQTVAVILLVYXXXX 256 +R+QVK++T+ RLLL +A+TALGYGG F FT+L+P++ +++GF V+ ILL Y Sbjct: 190 IRDQVKVLTHPRLLLIYAVTALGYGGVFTAFTFLAPMMQDLAGFSPAAVSWILLGYGVSV 249 Query: 257 XXXXXXXXXXXNRK-PLNALFYMFAFQAAVLLVLTFTAPFKAAALITIFFMGLLAFMNVP 315 ++ + AL ++FA +L+V TA + AAL TI MG+ AF NVP Sbjct: 250 AIGNIWGGKLADKHGAVPALKFIFAALFVLLMVFQVTASTQYAALATILVMGVFAFGNVP 309 Query: 316 GLQVYVVMLADRFAPSARDVASXXXXXXXXXXXXXXXXXXXXVTDHLGLVHTPWIGSIMV 375 GLQVYVV A++F P+A DVAS +H GL TPWIG+++V Sbjct: 310 GLQVYVVQKAEQFTPNAVDVASGLNIAAFNIGIALGSVIGGQTVEHYGLAQTPWIGALIV 369 Query: 376 LGAVVLTAWSRALEN 390 L A +L S L+ Sbjct: 370 LVAFLLMGVSGRLDK 384 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 0.137 0.388 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: 20,517,135 Number of extensions: 626206 Number of successful extensions: 3537 Number of sequences better than 1.0e-05: 66 Number of HSP's gapped: 3510 Number of HSP's successfully gapped: 68 Length of query: 401 Length of database: 38,378,431 Length adjustment: 109 Effective length of query: 292 Effective length of database: 25,807,025 Effective search space: 7535651300 Effective search space used: 7535651300 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)