Protein Info for Sama_0009 in Shewanella amazonensis SB2B

Annotation: inner membrane protein, 60 kDa (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 50 100 150 200 250 300 350 400 450 500 541 signal peptide" amino acids 1 to 28 (28 residues), see Phobius details transmembrane" amino acids 248 to 266 (19 residues), see Phobius details amino acids 326 to 346 (21 residues), see Phobius details amino acids 352 to 372 (21 residues), see Phobius details amino acids 418 to 439 (22 residues), see Phobius details amino acids 460 to 477 (18 residues), see Phobius details amino acids 497 to 519 (23 residues), see Phobius details TIGR03593: membrane protein insertase, YidC/Oxa1 family, N-terminal domain" amino acids 3 to 351 (349 residues), 371.7 bits, see alignment E=5.7e-115 PF14849: YidC_periplas" amino acids 68 to 342 (275 residues), 305.3 bits, see alignment E=6.3e-95 TIGR03592: membrane protein insertase, YidC/Oxa1 family" amino acids 352 to 532 (181 residues), 233.9 bits, see alignment E=1.6e-73 PF02096: 60KD_IMP" amino acids 353 to 532 (180 residues), 211.6 bits, see alignment E=7e-67

Best Hits

Swiss-Prot: 100% identical to YIDC_SHEAM: Membrane protein insertase YidC (yidC) from Shewanella amazonensis (strain ATCC BAA-1098 / SB2B)

KEGG orthology group: K03217, preprotein translocase subunit YidC (inferred from 100% identity to saz:Sama_0009)

MetaCyc: 52% identical to membrane protein insertase YidC (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-403

Predicted SEED Role

"Inner membrane protein translocase component YidC, long form"

MetaCyc Pathways

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 A1S1G5 at UniProt or InterPro

Protein Sequence (541 amino acids)

>Sama_0009 inner membrane protein, 60 kDa (RefSeq) (Shewanella amazonensis SB2B)
MESQRNLLLIGLLFVSFLLWQQWESDKAPKPATEVTAAAQIHDQAINSDVPTADAGVPAT
VAATQNLILVTTDQLEIQINPVGGDIVHAALLTHKLEQNEEAPFVLLEQKNNFSYIAQSG
LIGRDGIDSAASGRAKFAAAADAYTLADGQDTLEVPLTLTTDAGVTFTKVFVFKRGQFDV
GVDYRVANNSAAPVQVQMYGQIKQTITASESSMMMPTYRGAAFSTADVRYEKYSFDDMGK
KDLEEPTLGGWVAMLQHYFVSAWVPAAADKNTLFTSVSAGGLANIGFKGSVHDVAPGATE
TISATFYVGPKDQAALSALSDTLNLVVDYGFLWWLAVPIHWILMFFQSLVHNWGVAIILV
TLTVRGLLYPLTKAQYVSMAKMRNLQPKLQDLKDRFGDDRQKMGQAMMELYKKEKVNPMG
GCLPILLQMPIFIALYWVLLESVELRHAPFMLWIQDLSVQDPYYVLPLLMGASMWAMQKM
QPMAPNMDPMQQKMLQWMPMIFTVFFLWFPAGLVLYWLVGNLVAITQQKIIYASLEKKGL
K