Protein Info for EX31_RS16165 in Rahnella sp. WP5

Annotation: type II secretion system secretin GspD

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 50 100 150 200 250 300 350 400 450 500 550 600 659 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details TIGR02517: type II secretion system protein D" amino acids 31 to 600 (570 residues), 565.7 bits, see alignment E=6.1e-174 PF21305: type_II_gspD_N0" amino acids 31 to 100 (70 residues), 88 bits, see alignment E=4.5e-29 PF03958: Secretin_N" amino acids 127 to 189 (63 residues), 44.5 bits, see alignment E=2.2e-15 amino acids 193 to 262 (70 residues), 56.2 bits, see alignment E=4.9e-19 amino acids 267 to 343 (77 residues), 61.8 bits, see alignment E=8.9e-21 PF00263: Secretin" amino acids 429 to 591 (163 residues), 175.9 bits, see alignment E=8.5e-56

Best Hits

Swiss-Prot: 63% identical to GSPD_ECOLI: Putative secretin GspD (gspD) from Escherichia coli (strain K12)

KEGG orthology group: K02453, general secretion pathway protein D (inferred from 100% identity to rah:Rahaq_0337)

MetaCyc: 63% identical to type II secretion system protein GspD (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"General secretion pathway protein D"

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 (659 amino acids)

>EX31_RS16165 type II secretion system secretin GspD (Rahnella sp. WP5)
MKKFINSLLVKACILFATLPGIVHAEEFTASFKGTDIKEFIDTVSKNLNKTILIDPSVQG
TVSVRSYDVLNEEQYYQFFLSVLDVYGFAVIPMDNGLLKVVRSANAKMSGVPIADKNSPG
KGDEIITRVVTLLNVPVRELAPLLRQMNDSTGVGNVVHYEPSNVLLLTGRASVVNRLIKL
VERVDAMGDQQRQTIKLKYASAPEMAEMMNNLVREESKGQSSSILQAKIVADERTNTLII
SGPEGVRSRAAKLVSQLDKDQSSQGNTRVFYLKYAKAEKIVPVLTGITEEMKEGKTAQPS
GASNKPMSITADEQTNSIVITAQQDVMQSLEQVITKLDIRRAQVLVEAIIVEVQDGNGLN
LGIQWSNNQVGGTQFTGTGAPISTVAAGVRQYKKEGIISSDNPLSSTLQTFNGMTAGFFS
GDWNVLLTALSTSNKNDILATPSIVTLDNKEASFNVGQEVPSLSGSQTTSGDNIYSSVVY
KTVGTKLKVTPQINEGDSVLMEIEQEVSSVDTSTNSSLGPTFNTRTISNAVLVRTGETVV
LGGLLDDSTKETKSKVPLLGDIPWIGNLFRYTSTESAKRNLMVFIRPTIIRDDEVYSSIS
NKKYSHFQKIQKTRQDEDHQDLLTPNTRSILPDYPGNNVPKASISTTPDDGKPRNPFSG