Protein Info for GFF3179 in Sphingobium sp. HT1-2

Annotation: Protein translocase subunit SecF

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 50 100 150 200 250 300 327 transmembrane" amino acids 21 to 39 (19 residues), see Phobius details amino acids 139 to 160 (22 residues), see Phobius details amino acids 167 to 188 (22 residues), see Phobius details amino acids 194 to 214 (21 residues), see Phobius details amino acids 246 to 267 (22 residues), see Phobius details amino acids 273 to 298 (26 residues), see Phobius details PF07549: Sec_GG" amino acids 40 to 58 (19 residues), 22.9 bits, see alignment (E = 4.7e-09) TIGR00966: protein-export membrane protein SecF" amino acids 41 to 289 (249 residues), 251.8 bits, see alignment E=8.3e-79 PF02355: SecD_SecF_C" amino acids 116 to 297 (182 residues), 208.7 bits, see alignment E=5.4e-66 TIGR00916: protein-export membrane protein, SecD/SecF family" amino acids 123 to 286 (164 residues), 167 bits, see alignment E=5.3e-53

Best Hits

Swiss-Prot: 38% identical to SECF_DESIS: Protein translocase subunit SecF (secF) from Desulfurispirillum indicum (strain ATCC BAA-1389 / S5)

KEGG orthology group: K03074, preprotein translocase subunit SecF (inferred from 90% identity to sjp:SJA_C1-05890)

Predicted SEED Role

"Protein-export membrane protein SecF (TC 3.A.5.1.1)" (TC 3.A.5.1.1)

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 (327 amino acids)

>GFF3179 Protein translocase subunit SecF (Sphingobium sp. HT1-2)
MKLLKLVPDNTNIGFVKLRHWAFGLTLLLTVLAVGATFYKGLNLGVDFVGGLMIEAKFPQ
AVETDKVRDTIAGLRVGESSLQQFGDPKTVQIRLPLPEQGGAGAANAVVEKTRKAMEAQF
PGVTFSRYDTVSGKVSGELIQNGVLAVVLAIIGIAIFSWFRYEWQFGVSTFVAIVHDVLM
TLGFFAVTQLEFDLNIIAAVLTIVGYSINDKMVIDDRIRENMRKYRKMDMKSLIDLSVNE
TLPRTVMTSVTILLALGALLLLGGHVLRGFTAAMMLGIIVGTYSSVYVSSSLLITLGLSP
QTSEKKAKKGGIAAQAERMGPRDGAQP