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