Protein Info for Dshi_1859 in Dinoroseobacter shibae DFL-12

Annotation: protein-export membrane protein SecD (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 50 100 150 200 250 300 350 400 450 500 554 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details transmembrane" amino acids 392 to 410 (19 residues), see Phobius details amino acids 417 to 439 (23 residues), see Phobius details amino acids 445 to 466 (22 residues), see Phobius details amino acids 488 to 511 (24 residues), see Phobius details amino acids 517 to 544 (28 residues), see Phobius details TIGR01129: protein-export membrane protein SecD" amino acids 70 to 540 (471 residues), 504.5 bits, see alignment E=2.3e-155 PF21760: SecD_1st" amino acids 186 to 243 (58 residues), 79.6 bits, see alignment 1.4e-26 TIGR00916: protein-export membrane protein, SecD/SecF family" amino acids 303 to 533 (231 residues), 278.5 bits, see alignment E=4.3e-87 PF02355: SecD_SecF" amino acids 376 to 543 (168 residues), 80.9 bits, see alignment E=1.3e-26

Best Hits

Swiss-Prot: 62% identical to SECD_RHOCB: Protein translocase subunit SecD (secD) from Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)

KEGG orthology group: K03072, preprotein translocase subunit SecD (inferred from 100% identity to dsh:Dshi_1859)

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)

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 A8LN88 at UniProt or InterPro

Protein Sequence (554 amino acids)

>Dshi_1859 protein-export membrane protein SecD (RefSeq) (Dinoroseobacter shibae DFL-12)
MLQIPLWKRVLIWGVVLIGLSYALPNAFYSRVETHNDAAALVEAGAAETGEIAADLGQWP
AFLPSSLVNLGLDLRGGAHLLAEVQVADVYADRMDAFWPEVRDALRDARDTVGTIRRQDS
PPDQLRVRISNPEEITRAVAIVRGLAQPIVSFTGVGQDDIEVSFEGADLIIELSEAEKQA
TDDRTLQQSLEIIRRRVDEAGTREPTIQRQGEDRVLIQVPGIASASELKELIGQTARLTF
NPVVSRTSDPDAPPGPRNIVLPSIDEPNTYYVLEQTPVVSGDQLTDAQPSFDQNGRPAVN
FRFNPTGARLFGDYTAENIGSPFAIVLDNEVISAPVIQSHIPGGSGIITGNFSVEESTQL
AVLLRAGALPAEMIFLEERTIGPELGQDSIEAGALACLVALGAVLVFMMLSYGLFGVFAN
IALLLNIALIFGVLSLIGATLTLPGIAGIVLTIGMAVDANVLVFERIREELKTARGPARA
IELGYEKALSAIVDANTTTFIVAAILFTLGAGPVRGFAVTLGIGIVTSVFTAIFVTRLLI
VLWFERRRPKQIEV