Align Monosaccharide-transporting ATPase, component of Glucose porter. Also bind xylose (Boucher and Noll 2011). Induced by glucose (Frock et al. 2012). Directly regulated by glucose-responsive regulator GluR (characterized)
to candidate H281DRAFT_02712 H281DRAFT_02712 monosaccharide ABC transporter ATP-binding protein, CUT2 family
Query= TCDB::G4FGN3 (494 letters) >FitnessBrowser__Burk376:H281DRAFT_02712 Length = 505 Score = 444 bits (1143), Expect = e-129 Identities = 241/498 (48%), Positives = 343/498 (68%), Gaps = 12/498 (2%) Query: 3 PILEVKSIHKRFPGVHALKGVSMEFYPGEVHAIVGENGAGKSTLMKIIAGVYQPDEG-EI 61 P LE+++I + FPGV AL V++E GEV A+ GENGAGKSTLMKI+ G+Y PD G I Sbjct: 8 PFLEMRNISRTFPGVKALDRVNLEIRAGEVLALAGENGAGKSTLMKILTGIYAPDPGGTI 67 Query: 62 IYEGRGVRWNHPSEAINAGIVTVFQELSVMDNLSVAENIFMGDEEKRGI-FIDYKKMYRE 120 + EG+ V A G+ ++QEL+V+ NL+V ENIF+ E + + ID +MYRE Sbjct: 68 LVEGQEVALADSHHARTLGVNIIYQELAVVGNLTVGENIFLAREPRTRLGLIDRPRMYRE 127 Query: 121 AEKFMKEEFGIEIDPEEKLGKYSIAIQQMVEIARAVYKKAKVLILDEPTSSLTQKETEKL 180 A + + ++IDP ++ + S+ QQM+EIA+A+ ++K +I+DEPT+SL+ ET L Sbjct: 128 AREVLAT-IDMDIDPATRVSELSVGQQQMIEIAKALCARSKAIIMDEPTASLSHHETSVL 186 Query: 181 FEVVKSLKEKGVAIIFISHRLEEIFEICDKVSVLRDGEYIGTDSIENLTKEKIVEMMVGR 240 +VK L+E+ +A+++ISHRLEEIFE+ D+V+VLRDG +GT I ++T+E +V +MV R Sbjct: 187 LGIVKRLRERNIAVVYISHRLEEIFELADRVTVLRDGRTVGTAPIADMTRETLVRLMVAR 246 Query: 241 KLEKFYIK-EAHEPGEVVLEVKNLSGE-------RFENVSFSLRRGEILGFAGLVGAGRT 292 +L + Y + ++H + VLEV+ LS + R ++SF+L RGE+LG AGLVG+GRT Sbjct: 247 ELSELYGEPQSHASRDPVLEVRALSLKPVRKAEPRIRDISFTLHRGEVLGIAGLVGSGRT 306 Query: 293 ELMETIFGFRPKRGGEIYIEGKRVEINHPLDAIEQGIGLVPEDRKKLGLILIMSIMHNVS 352 E+ME IFG R G + IEGK V I +P DAI GIG V EDRK GLIL M++ N S Sbjct: 307 EIMEMIFGMRACTGS-VKIEGKPVSIRNPHDAIRSGIGFVTEDRKAQGLILGMTVRENFS 365 Query: 353 LPSLDRIKKGPFISFKREKELADWAIKTFDIRPAYPDRKVLYLSGGNQQKVVLAKWLALK 412 L L+R F+ RE+E ++ I+ ++KV+ LSGGNQQK+V+AKW+A Sbjct: 366 LTHLERYSPFQFVQHARERESCRRFVRMLGIKTPGVEQKVVNLSGGNQQKIVIAKWVARS 425 Query: 413 PKILILDEPTRGIDVGAKAEIYRIMSQLAKEGVGVIMISSELPEVLQMSDRIAVMSFGKL 472 PK+LI+DEPTRGIDVGAKAE++ ++++LA EG+GVI+ISS+L EVL +SDRI + G++ Sbjct: 426 PKVLIVDEPTRGIDVGAKAEVHALIARLAAEGIGVIVISSDLLEVLAVSDRILTVREGRI 485 Query: 473 AGIIDAKEASQEKVMKLA 490 +G + +ASQEKVM LA Sbjct: 486 SGELSRAQASQEKVMALA 503 Score = 100 bits (249), Expect = 1e-25 Identities = 69/251 (27%), Positives = 127/251 (50%), Gaps = 11/251 (4%) Query: 250 AHEPGEVVLEVKNLSG-----ERFENVSFSLRRGEILGFAGLVGAGRTELMETIFG-FRP 303 +H G LE++N+S + + V+ +R GE+L AG GAG++ LM+ + G + P Sbjct: 2 SHVTGVPFLEMRNISRTFPGVKALDRVNLEIRAGEVLALAGENGAGKSTLMKILTGIYAP 61 Query: 304 KRGGEIYIEGKRVEINHPLDAIEQGIGLVPEDRKKLGLILIMSIMHNVSLPSLDRIKKGP 363 GG I +EG+ V + A G+ ++ ++ L ++ +++ N+ L R + G Sbjct: 62 DPGGTILVEGQEVALADSHHARTLGVNIIYQE---LAVVGNLTVGENIFLAREPRTRLG- 117 Query: 364 FISFKREKELADWAIKTFDIRPAYPDRKVLYLSGGNQQKVVLAKWLALKPKILILDEPTR 423 I R A + T D+ P +V LS G QQ + +AK L + K +I+DEPT Sbjct: 118 LIDRPRMYREAREVLATIDM-DIDPATRVSELSVGQQQMIEIAKALCARSKAIIMDEPTA 176 Query: 424 GIDVGAKAEIYRIMSQLAKEGVGVIMISSELPEVLQMSDRIAVMSFGKLAGIIDAKEASQ 483 + + + I+ +L + + V+ IS L E+ +++DR+ V+ G+ G + ++ Sbjct: 177 SLSHHETSVLLGIVKRLRERNIAVVYISHRLEEIFELADRVTVLRDGRTVGTAPIADMTR 236 Query: 484 EKVMKLAAGLE 494 E +++L E Sbjct: 237 ETLVRLMVARE 247 Lambda K H 0.318 0.138 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 1 Number of Hits to DB: 645 Number of extensions: 31 Number of successful extensions: 11 Number of sequences better than 1.0e-02: 1 Number of HSP's gapped: 2 Number of HSP's successfully gapped: 2 Length of query: 494 Length of database: 505 Length adjustment: 34 Effective length of query: 460 Effective length of database: 471 Effective search space: 216660 Effective search space used: 216660 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 52 (24.6 bits)
This GapMind analysis is from Sep 17 2021. The underlying query database was built on Sep 17 2021.
Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.
A candidate for a step is "high confidence" if either:
Otherwise, a candidate is "medium confidence" if either:
Other blast hits with at least 50% coverage are "low confidence."
Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:
GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).
For more information, see:
If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know
by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory