Protein Info for LRK53_RS02780 in Rhodanobacter sp000427505 FW510-R12

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 776 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF21305: type_II_gspD_N0" amino acids 98 to 166 (69 residues), 34.6 bits, see alignment E=2.1e-12 TIGR02517: type II secretion system protein D" amino acids 98 to 753 (656 residues), 477.5 bits, see alignment E=3.1e-147 PF03958: Secretin_N" amino acids 195 to 253 (59 residues), 44.4 bits, see alignment 2.4e-15 amino acids 260 to 326 (67 residues), 36.9 bits, see alignment E=5.1e-13 amino acids 334 to 498 (165 residues), 37.4 bits, see alignment E=3.7e-13 PF00263: Secretin" amino acids 579 to 744 (166 residues), 168.6 bits, see alignment E=1.4e-53

Best Hits

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)

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 (776 amino acids)

>LRK53_RS02780 type II secretion system secretin GspD (Rhodanobacter sp000427505 FW510-R12)
MSRMLIQPILRTAALALAVALAACASLPPPHDDGALQREAMAGTQNPVPAPLPLNNEGGS
RGASAATAEVSHGSGRFIRPGALATPRPVASGNGAVTFNFENQPVQAVVKAILGDLLKQN
YTIVPGVQGNISFATSEPVDASQALPILETLLSWTGNALVRRDGGYVVMPQKDAVAGNLV
PSLGASAPAGGLQARLFPLHYISATEMQKLIKPFARPDATLLVDPARNLLVMSGTPQELA
NYQSMVRTFDVDWLRGMSVGVFNLQYANVGELMPKLDAMFGEHGNTPLAGMLRFIPIERT
NALVVISTQSDYLQEVGDWIARIDRGGGNEPQLFVYDVRNIKASDLAKYLAQIYANGAGS
GGDNGGQVGPGLTGVTLGSAENAGATSMGSTAGGFGNPVDASRGGGQVNSGMGSGGFGAT
GGGRDSGAAAGRFGSSSAGFGGNPVGGGNGAASEAQYSSSDGSVRISSVDGSNQLLVRAR
PSQWEEIKTAISKLDNVPLQVQIETRILEVNLTGEFQFGVQWYLEGLTGSTGSTSNGTFV
PGQPYRHRQLGLGQGGNAFGGEPFFYSFLNSDLQVAVRAMETSGNTKTLSAPSMVVMNNQ
VASIAVGNQIPINQTSVNTGIGTTTSYSQVNYLSTGVILNVQPRINPGGLVYMNISQEVS
QADKSVPLVNGNPAISQRKLATQVAVQSGQTVLLGGLIQQAEGNTDTGIPGLNRVPVLGR
LFGSTNRSRNRTELIVLITPRVIRGGADAKQITDDYQSKFESLEPLRTPAGAGTKP