Protein Info for HMPREF1058_RS12515 in Phocaeicola vulgatus CL09T03C04

Annotation: glycyl radical protein

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

Best Hits

Swiss-Prot: 53% identical to HYPD_CLODI: Trans-4-hydroxy-L-proline dehydratase (pflD) from Clostridioides difficile

KEGG orthology group: K00656, formate C-acetyltransferase [EC: 2.3.1.54] (inferred from 100% identity to bvu:BVU_1421)

MetaCyc: 53% identical to trans-4-hydroxy-L-proline dehydratase (Clostridioides difficile 630)
RXN-18502 [EC: 4.2.1.172]

Predicted SEED Role

"Pyruvate formate-lyase (EC 2.3.1.54)" in subsystem Butanol Biosynthesis or Fermentations: Mixed acid (EC 2.3.1.54)

MetaCyc Pathways

superpathway of L-threonine metabolism (15/18 steps found)
L-threonine degradation I (6/6 steps found)
superpathway of N-acetylneuraminate degradation (17/22 steps found)
pyruvate fermentation to acetate IV (3/3 steps found)
(S)-lactate fermentation to propanoate, acetate and hydrogen (10/13 steps found)
reductive monocarboxylic acid cycle (2/2 steps found)
superpathway of fermentation (Chlamydomonas reinhardtii) (7/9 steps found)
mixed acid fermentation (12/16 steps found)
hexitol fermentation to lactate, formate, ethanol and acetate (14/19 steps found)
pyruvate fermentation to ethanol I (2/3 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.3.1.54

Use Curated BLAST to search for 2.3.1.54 or 4.2.1.172

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See I8ZYK5 at UniProt or InterPro

Protein Sequence (808 amino acids)

>HMPREF1058_RS12515 glycyl radical protein (Phocaeicola vulgatus CL09T03C04)
MEISIYEPVDLIITLMKTTINGMTDRIRRLRQESFDTQPSLSIERALIETEFYKENEGKY
PIPILRALNFLEICKRKTIYIGEDELIVGERGPRPKAVSTFPELTCHSVEDLHVLNTREL
QRYTISQKDIDTYEREVIPYWKGRTQRERIFNHVPKEWKEAYEVGMFTEFMEQRAPGHTS
LDGKVYQHGMLDLKERIAHELKNLDFMNDPEATDKQEELTAMSISCDAAIIFAERHAELA
EKMAGQETDPKRKEELKKIAEICRWVPAHAPRTYWEAIQMYWFVHLGTITELNGWDAMNP
GHFDQHLAPFYEKDLEEGILTRAEAKELMSCFFIKVNNQTAPPKVGITAKESGTYNDFTN
LNIGGIKRDGSNGVSEVSYIMLETVDDLHLLQPGSALHISVCTPERFLREGCKVIRKGYG
YPSVFNPDTYVMELMRQGKTPEDAREGGCSGCIEVGAFGKEAYILTGYLNVPKILEVTLH
NGTDPVSGKKVGLVTGDPCTFRSYEELYDAFLKQIHYFVDMKVRVSNYIDRMFAKYAPAT
FLSLFIDDCIAKGKDYYNCGPRYNTSYIQCTGLGTITDSLSVLKKHVFEERKFNMEQIIH
ATDTNFEGQEAMRQFILNRTPFFGNDDEYADRIAIQIFNDLYDAIEGKPNTKGECFHLNM
LSTTCHVYFGKMMNATPNGRLAGRAISDGTSPSHGADTHGPSAVIKSLGKLDQVKSGGTL
LNQRFLPSLLKHDEDIAKLASLIRSYFALGGHHIQFNIVDTATLHAAQKHPEEYRDLLVR
VAGYSDYFNDMNTDLQYDVIARTAQETF