Protein Info for GFF3276 in Variovorax sp. SCN45

Annotation: Inner membrane protein translocase and chaperone YidC, long form

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 50 100 150 200 250 300 350 400 450 500 561 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details transmembrane" amino acids 375 to 394 (20 residues), see Phobius details amino acids 440 to 462 (23 residues), see Phobius details amino acids 485 to 502 (18 residues), see Phobius details amino acids 514 to 538 (25 residues), see Phobius details TIGR03593: membrane protein insertase, YidC/Oxa1 family, N-terminal domain" amino acids 4 to 373 (370 residues), 320.8 bits, see alignment E=1.7e-99 PF14849: YidC_periplas" amino acids 82 to 364 (283 residues), 253.8 bits, see alignment E=3.2e-79 TIGR03592: membrane protein insertase, YidC/Oxa1 family" amino acids 374 to 553 (180 residues), 221 bits, see alignment E=1.4e-69 PF02096: 60KD_IMP" amino acids 375 to 553 (179 residues), 204 bits, see alignment E=1.5e-64

Best Hits

Swiss-Prot: 46% identical to YIDC_AROAE: Membrane protein insertase YidC (yidC) from Aromatoleum aromaticum (strain EbN1)

KEGG orthology group: K03217, preprotein translocase subunit YidC (inferred from 94% identity to vap:Vapar_5299)

Predicted SEED Role

"Inner membrane protein translocase component YidC, long form"

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

Find the best match in UniProt

Protein Sequence (561 amino acids)

>GFF3276 Inner membrane protein translocase and chaperone YidC, long form (Variovorax sp. SCN45)
MNDIRRTILWVIFGFSLVLLWDQWQVFNGNKPTFLPSSKPAVTAPAAGTPATANGVPTAS
AAPGSAGAVPTSALPAAPREKVNVTTDLFKATIDSEGATVNYLELLKYDEADRSKHVVLF
EDGSPATRYVAQTGLLNPVAGEAFPNHLTQMTPKAGPREMADGQNTLEVSFESAPVGGLK
YVKTYVFHRGDYAIGVRHEVVNVSDQPRDALLYMQLLRHGTVAAGTMFGTNTFTGPAAYT
NEKKFHKLDFKDIAKGKIEPPPPANDGWIAMVQHYFASAWLLKGDPASEQLRREFRVKDL
GDNLFTVSMVATLPKIAPGATQVVNSALFAGPEEEKKLEAIAPGLDLVKDYGIFAIISKP
LYWLLTQLHGILGNWGWSIVALVVLLKAAFYWLNAKAYASMAKMKAINPKIMEMRERLKD
KPQEMQQEMMRIYKTEKVNPMGGCFPIVIQIPVFIALYWVLLSSVEMRHAPWIGWISDLS
APDPWYILPIVMTATSLFQTWLNPTPPDPMQAKLMWIMPLAFSVMFIFFPAGLVLYWITN
NVLSIAQQWFINKRLGVLGTK