HHsearch alignment for GI: 254780724 and conserved domain: TIGR02475
>TIGR02475 CobW cobalamin biosynthesis protein CobW; InterPro: IPR012824 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase . In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase . There are at least two distinct cobalamin biosynthetic pathways in bacteria : Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway ; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis ; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) . There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobW proteins, which are generally found proximal to the trimeric cobaltochelatase subunit CobN, an essential protein for vitamin B12 (cobalamin) biosynthesis . They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids.; GO: 0009236 cobalamin biosynthetic process.
Probab=95.35 E-value=0.02 Score=35.58 Aligned_cols=142 Identities=21% Similarity=0.293 Sum_probs=79.9
Q ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCEEEEE-CCHHHCCCCC--CEEEEEEECCC---------CC--------CCCCC
Q ss_conf 89981888888899999983038767679996-4213125678--75677874166---------66--------53000
Q gi|254780724|r 253 VLISGGTGSGKTTLLNCLTRYIDKDERIVTCE-DTAELQLQQP--HVVRLETRPPN---------IE--------GEGEI 312 (483)
Q Consensus 253 ilVsG~TGSGKTT~L~al~~~i~~~~rivtIE-D~~El~l~~~--~~v~~~~~~~~---------~e--------~~~~~ 312 (483)
T Consensus 7 TvvTGFLGaGKTTLiRhlL-~NA~GkRiAvIVNEFGd~GiDG~iLk~Cgi~~C~Eeeaq~~i~ELaNGCiCCTVaDdF~P 85 (349)
T TIGR02475 7 TVVTGFLGAGKTTLIRHLL-ENAEGKRIAVIVNEFGDLGIDGEILKACGIEACSEEEAQVNIVELANGCICCTVADDFIP 85 (349)
T ss_pred EEEECCCCCCHHHHHHHHH-HCCCCCEEEEEEECCCCCCCCHHHHHHCCCCCCCCHHHCCCEEECCCCCEECCCHHHHHH
T ss_conf 7873756761589999997-174787699998525560636799964356788801200014880889731032012567
Q ss_pred HHHHHHHHHHHCCCCEEEECCCCCHHH-HHHHHHHH--------CCCCEEEHHH---------CCCCHHHHH-HHHHHHH
Q ss_conf 189999875205998899657587999-99999987--------3970102000---------478888899-9999755
Q gi|254780724|r 313 TMRDLVKNCLRMRPERIILGEVRGPEV-LDLLQAMN--------TGHDGSMGTI---------HANNARESF-GRMEAMI 373 (483)
Q Consensus 313 t~~~ll~~aLR~~PD~IiVGEiRg~Ea-~~~l~A~~--------TGH~G~ltTl---------Ha~s~~~ai-~RL~~m~ 373 (483)
T Consensus 86 tm~~LL--~R~~~~DHIlI-ETSGLALPKPLV~AF~WP~iRs~vTV-DGVvtVVDg~AvAAG~fA~D~dav~aQR~aD~n 161 (349)
T TIGR02475 86 TMTKLL--ARRERPDHILI-ETSGLALPKPLVQAFQWPEIRSRVTV-DGVVTVVDGPAVAAGRFAADPDAVDAQRAADDN 161 (349)
T ss_pred HHHHHH--HCCCCCCEEEE-ECCHHHCCHHHHHHCCCCCCCCCEEE-CEEEEEECHHHHCCCCCCCCHHHHHHHHHHCCC
T ss_conf 999997--03889866887-44210022158864688212271275-417885444650358885437899999860877
Q ss_pred HHCCCCCCHHHHHHHHHHHCCEEEEEE
Q ss_conf 304679998999999974235889998
Q gi|254780724|r 374 AMGGFTLPSQMVREIITSSLDVIVQTQ 400 (483)
Q Consensus 374 ~~~~~~~~~~~~~~~ia~avd~iV~~~ 400 (483)
T Consensus 162 LDHed~PLeElFEDQlacA-DLviLnK 187 (349)
T TIGR02475 162 LDHEDSPLEELFEDQLACA-DLVILNK 187 (349)
T ss_pred CCCCCCCCHHHHHHHHHHH-HHHHHHH
T ss_conf 7888885123366899988-9998534