Protein Info for PS417_23235 in Pseudomonas simiae WCS417

Annotation: preprotein 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 50 100 150 200 250 300 350 400 450 500 550 622 transmembrane" amino acids 7 to 23 (17 residues), see Phobius details amino acids 464 to 483 (20 residues), see Phobius details amino acids 489 to 507 (19 residues), see Phobius details amino acids 513 to 533 (21 residues), see Phobius details amino acids 554 to 578 (25 residues), see Phobius details amino acids 587 to 612 (26 residues), see Phobius details signal peptide" amino acids 24 to 25 (2 residues), see Phobius details PF13721: SecD-TM1" amino acids 2 to 106 (105 residues), 112.1 bits, see alignment E=5.1e-36 PF07549: Sec_GG" amino acids 118 to 143 (26 residues), 26.8 bits, see alignment (E = 8.4e-10) TIGR01129: protein-export membrane protein SecD" amino acids 126 to 608 (483 residues), 430.7 bits, see alignment E=6e-133 PF21760: SecD_1st" amino acids 232 to 289 (58 residues), 98.5 bits, see alignment 3.5e-32 PF22599: SecDF_P1_head" amino acids 303 to 439 (137 residues), 101.3 bits, see alignment E=9.2e-33 TIGR00916: protein-export membrane protein, SecD/SecF family" amino acids 344 to 601 (258 residues), 223.8 bits, see alignment E=2.3e-70 PF02355: SecD_SecF_C" amino acids 445 to 608 (164 residues), 60.3 bits, see alignment E=5.2e-20 PF03176: MMPL" amino acids 478 to 609 (132 residues), 26.9 bits, see alignment E=6.9e-10

Best Hits

Swiss-Prot: 82% identical to SECD_PSEAE: Protein translocase subunit SecD (secD) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03072, preprotein translocase subunit SecD (inferred from 98% identity to pfs:PFLU5075)

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

See A0A1N7UBR8 at UniProt or InterPro

Protein Sequence (622 amino acids)

>PS417_23235 preprotein translocase subunit SecD (Pseudomonas simiae WCS417)
MLNKYPLWKYVLILAVLAIGFIYSAPNLYPDDPAIQISGASTTLQVNQADLERASKALND
AGIQVKAATLAAGAKGGLLRLTKQEDQLPAKDVVRKVMGDDYVVALNLAQTTPQWLRSIG
AHPMKLGLDLSGGVHFLLEVDMDKALDARLKVYEGDVKSLLRKERLRYRSLPQLNGAIQL
GFSDEASREQARALIRKNFNDFDIVPADLNGQAVLRLAMSPAKIAEIREYSIKQNLTTVR
NRVNELGVAEPIVQRQGANRIVVELPGVQDTAEAKRILGKTANLEFRLAAEPGATRATAE
EFEFREGNRPPALIERGLIITGDQVTDAKAGFGEHGTPEVNIRLDGHGGELMSRATRSNV
GRSMAVIFIEQRPITTYTKQMVNGVEKDVPVQTFKEEKKIISLATIQSPLGAQFRITGLN
GQGESSELALLLRAGGLAAPMYFAEERTIGPSLGADNITKGVDAALWGMLFVSLFIIAIY
RFFGVIATVALAGNMVMLLALMSLLGATLTLPGIAGIVLTMGMAVDANVLIFSRIREEIA
AGMTVQRAINEGFGRAFTAILDSNLTTLLVGGILFAMGTGPVKGFAVTMSLGIFTSMFTA
IMVTRAMVNLIFGGRDFKKLWI