Protein Info for GFF5565 in Variovorax sp. SCN45

Annotation: Protein translocase subunit SecY

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 50 100 150 200 250 300 350 400 437 transmembrane" amino acids 21 to 39 (19 residues), see Phobius details amino acids 73 to 97 (25 residues), see Phobius details amino acids 117 to 137 (21 residues), see Phobius details amino acids 149 to 169 (21 residues), see Phobius details amino acids 181 to 203 (23 residues), see Phobius details amino acids 212 to 232 (21 residues), see Phobius details amino acids 268 to 290 (23 residues), see Phobius details amino acids 312 to 333 (22 residues), see Phobius details amino acids 366 to 389 (24 residues), see Phobius details amino acids 395 to 414 (20 residues), see Phobius details TIGR00967: preprotein translocase, SecY subunit" amino acids 18 to 425 (408 residues), 436.8 bits, see alignment E=3.9e-135 PF00344: SecY" amino acids 74 to 413 (340 residues), 387.7 bits, see alignment E=2.2e-120

Best Hits

Swiss-Prot: 66% identical to SECY_SHIFL: Protein translocase subunit SecY (secY) from Shigella flexneri

KEGG orthology group: K03076, preprotein translocase subunit SecY (inferred from 99% identity to vap:Vapar_5050)

MetaCyc: 66% identical to Sec translocon subunit SecY (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Preprotein translocase secY subunit (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)

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

Find the best match in UniProt

Protein Sequence (437 amino acids)

>GFF5565 Protein translocase subunit SecY (Variovorax sp. SCN45)
VATNAATIAKTGKFGDLRRRLVFLLLALVVYRIGAHIPVPGINPDQLAALFQGQQGGILS
LFNMFSGGALSRFTVFALGIMPYISASIIMQLMTYVLPTFEQLKKEGEAGRRKITQYTRY
GALGLALFQSFSIAVALESSAGLVIAPGFGFRLTAMVSLTAGSMFLMWLGEQITERGLGN
GISILIFAGIAAGLPNAIGGLASLVTTGAMNPIIALFIIAVVVLVTYFVVFVERGQRKIL
VNYARRQVGNKVYGGQSSHLPLKLNMAGVIPPIFASSIILLPATVVGWFSTGEGGFRWIK
DVAGALRPGEPIYVLLYAAAIVFFCFFYTALVFNSKETADNLKKSGAFIPGIRPGDQTAR
YIDKILVRLTLAGAVYITFVCLLPEFLILKYNVPFYFGGTSLLIIVVVTMDFMAQVQNYM
MSQQYESLLKKANFKTS