Protein Info for DvMF_0275 in Desulfovibrio vulgaris Miyazaki F

Annotation: putative alpha-isopropylmalate/homocitrate synthase family transferase (RefSeq)

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

1 50 100 150 200 250 300 350 400 450 500 540 PF00682: HMGL-like" amino acids 4 to 256 (253 residues), 155.7 bits, see alignment E=2.3e-49 TIGR00977: citramalate synthase" amino acids 5 to 532 (528 residues), 680.4 bits, see alignment E=6.5e-209 PF22617: HCS_D2" amino acids 294 to 371 (78 residues), 46.5 bits, see alignment E=6.1e-16 PF08502: LeuA_dimer" amino acids 381 to 524 (144 residues), 71.8 bits, see alignment E=7.9e-24

Best Hits

Swiss-Prot: 55% identical to CIMA_GEOSL: (R)-citramalate synthase (cimA) from Geobacter sulfurreducens (strain ATCC 51573 / DSM 12127 / PCA)

KEGG orthology group: K01649, 2-isopropylmalate synthase [EC: 2.3.3.13] (inferred from 100% identity to dvm:DvMF_0275)

MetaCyc: 55% identical to (R)-citramalate synthase (Geobacter sulfurreducens)
RXN-7743 [EC: 2.3.3.21]

Predicted SEED Role

"(R)-citramalate synthase (EC 2.3.1.182)" in subsystem Branched-Chain Amino Acid Biosynthesis (EC 2.3.1.182)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.3.3.13

Use Curated BLAST to search for 2.3.1.182 or 2.3.3.13 or 2.3.3.21

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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 B8DPE5 at UniProt or InterPro

Protein Sequence (540 amino acids)

>DvMF_0275 putative alpha-isopropylmalate/homocitrate synthase family transferase (RefSeq) (Desulfovibrio vulgaris Miyazaki F)
MTRRIQLYDTTLRDGSQSEDINLTAADKLKIALKLDEIGIDRIEGGWPGSNPVDVAFFKE
IANYHLKHAVISAFGSTHHPNFTADSDPNLRAIAESGARVASIFGKSCEVHAAEALRLDA
ARNLEIIGDSVAFLKGKLAEVYFDAEHFFDGYRHNAAYALSALRRAHEAGADVLVLCDTN
GGTLPHEVARIVTEVREALPGAAVGIHAHNDCELAVANSIAAVQAGAVQIQGTINGVGER
CGNANLCSIIPTLELKFGGEYTCLPEGRLQQLTAVAAYVSEVANIPPFSRQPYVGRSAFA
HKGGVHVSAVNRKSSLYEHISPDVVGNRQRILITELAGRSNIVSLARRFGFHLDKDEPVV
KGLLTELKKKASLGYDYAAAEASVELLILRKLARRGVREFFRLLQFRVLETKHDSEGEPV
SEVSVMVDVEGVTEHTAATGRGPVNALDNALRKALLGFYPRLSEMRLLDFKVRVLTGAET
GGGTASTVRVLIESGDSDSRWVTVGVSFNIIEASWQALADSVTYKLYKDEHARRAGSDGE