Protein Info for CSW01_03860 in Vibrio cholerae E7946 ATCC 55056

Annotation: protein translocase subunit SecD

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 50 100 150 200 250 300 350 400 450 500 550 617 signal peptide" amino acids 1 to 31 (31 residues), see Phobius details transmembrane" amino acids 454 to 474 (21 residues), see Phobius details amino acids 480 to 500 (21 residues), see Phobius details amino acids 506 to 527 (22 residues), see Phobius details amino acids 548 to 573 (26 residues), see Phobius details amino acids 582 to 607 (26 residues), see Phobius details PF13721: SecD-TM1" amino acids 2 to 103 (102 residues), 126.1 bits, see alignment E=2.1e-40 PF07549: Sec_GG" amino acids 115 to 141 (27 residues), 28.6 bits, see alignment (E = 2.4e-10) TIGR01129: protein-export membrane protein SecD" amino acids 123 to 603 (481 residues), 498.1 bits, see alignment E=2e-153 PF21760: SecD_1st" amino acids 229 to 288 (60 residues), 101.5 bits, see alignment 4.1e-33 PF22599: SecDF_P1_head" amino acids 309 to 433 (125 residues), 112.6 bits, see alignment E=3e-36 TIGR00916: protein-export membrane protein, SecD/SecF family" amino acids 347 to 596 (250 residues), 275 bits, see alignment E=5.2e-86 PF02355: SecD_SecF_C" amino acids 435 to 596 (162 residues), 69.4 bits, see alignment E=8.7e-23 PF03176: MMPL" amino acids 487 to 595 (109 residues), 39.1 bits, see alignment E=1.4e-13

Best Hits

Swiss-Prot: 89% identical to SECD_VIBAL: Protein translocase subunit SecD (secD) from Vibrio alginolyticus

KEGG orthology group: K03072, preprotein translocase subunit SecD (inferred from 100% identity to vcj:VCD_003583)

MetaCyc: 63% identical to Sec translocon accessory complex subunit SecD (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Protein-export membrane protein SecD (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 (617 amino acids)

>CSW01_03860 protein translocase subunit SecD (Vibrio cholerae E7946 ATCC 55056)
MLNRYPLWKYLMVMLTIAVAALYALPNIYGEDPAIQITGARGASVDMSTLDAVTDALNKA
QLSQKSIALENGSILVRFNDTDTQISARDIISEALGKDKIVALNLAPSTPYWLESIGAAP
MKLGLDLRGGVHFLMEVDMDAAMEKLVSQQEEAFRSDLRDEKIRYRAIRPLSDAVEVTLR
DAEQLAQTKLLLESKHRDMTFTTSESDGRFVLVAKFTEARLQEIRNYAVEQNITILRNRV
NELGVAEPLVQRQGATRIVVELPGVQDTARAKEILGATATLEFREVDDKADLAAAAAGRA
PAGSEIKFDRNGRPVVLKKRVILGGSSITDASSSADEYGRPQVNISLDSEGGNKMSAFSK
KNIGKLMATVFAEYKDSGKRSPEGKVILTKHEEVINQATIQSALGRNFRITGIDSPAEAH
NLALLLRAGALIAPISIVEERTIGPSMGQQNIDMGIQACIWGMVAVMLFTVLYYRKFGMI
ANIALMANLVLIIGVMSMIPGATMTLPGIAGIVLTVGMAVDANVLIFERIREELREGKNP
QQAIHQGYANAFSTIADANITTLITAIILFAVGTGAIKGFAVTLSIGILTSMFTAIVGTR
CIVNLLYGGKRINKLSI