Protein Info for LRK53_RS06850 in Rhodanobacter sp000427505 FW510-R12

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 50 100 150 200 250 300 350 400 450 500 550 600 627 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details transmembrane" amino acids 467 to 485 (19 residues), see Phobius details amino acids 494 to 512 (19 residues), see Phobius details amino acids 518 to 537 (20 residues), see Phobius details amino acids 564 to 586 (23 residues), see Phobius details amino acids 592 to 616 (25 residues), see Phobius details PF13721: SecD-TM1" amino acids 1 to 102 (102 residues), 92.5 bits, see alignment E=7.3e-30 PF07549: Sec_GG" amino acids 115 to 140 (26 residues), 25.5 bits, see alignment (E = 2.6e-09) TIGR01129: protein-export membrane protein SecD" amino acids 123 to 612 (490 residues), 430.3 bits, see alignment E=8e-133 PF21760: SecD_1st" amino acids 233 to 288 (56 residues), 84.9 bits, see alignment 7.1e-28 PF22599: SecDF_P1_head" amino acids 314 to 444 (131 residues), 114.2 bits, see alignment E=1.1e-36 TIGR00916: protein-export membrane protein, SecD/SecF family" amino acids 357 to 606 (250 residues), 230.1 bits, see alignment E=2.7e-72 PF02355: SecD_SecF_C" amino acids 447 to 615 (169 residues), 66.5 bits, see alignment E=7.6e-22 PF00873: ACR_tran" amino acids 463 to 616 (154 residues), 29.5 bits, see alignment E=6.1e-11 PF03176: MMPL" amino acids 490 to 615 (126 residues), 49.5 bits, see alignment E=1.1e-16

Best Hits

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 (627 amino acids)

>LRK53_RS06850 protein translocase subunit SecD (Rhodanobacter sp000427505 FW510-R12)
MSDFPRWKYALVALVMLFGIIYALPNAFPPVPAVQVTANRDAPPINQAVQQKVQAALTAK
KIAVTDVFMEGDHLLATFANSDVQKSGLEEIKAALGDGYTVAFKLQSNVPRWLSAIGARA
MPLGLDLQGGVHFLMQVDQKDAIEKQENSYADDIRSLLRQKNIRYESVTRNAAGGQGIAV
ILRSADDRSTASDAIANEYVDLLVSSGASTGDRFVLNVAIKPDKLRELSRSAITQNLGTL
RNRINALGVSEPLIQQQGDSRIVVELAGVQDPAEAKKLIGAVATLQYRPGIGQPGDTRAV
EAARTGNIPPDANLYYMRGDNRPVLVSKQIIVTGNQLVDASSGIDQQSGTPKVDVTLNAA
GAKKMGDFTNANVGKPMAVLYVEQVYETKVVDGKEVRVPKITETVINDATIQSPFSKQFQ
TTGLGSAKEASELALLLKGGALAAPMDIVEESVIGASLGQDNIDKGFKAVMLGLALVLLA
AAIYYKLFGLVADIALFFNLVVLLAVMSLIGVTLTMPGVAGIVLTLGMAIDANVLICERI
REELRNGSSPHAAIRAGYEKAWSTILDANVTHLIAALALTTMGTGAIKGFGVTLMIGILT
SLFTSVTLTHAFTAAIHGHRKLKTLSV