Protein Info for GFF3166 in Xanthobacter sp. DMC5

Annotation: Periplasmic serine endoprotease DegP

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 50 100 150 200 250 300 350 400 450 496 signal peptide" amino acids 1 to 39 (39 residues), see Phobius details TIGR02037: peptidase Do" amino acids 46 to 485 (440 residues), 499.8 bits, see alignment E=3.5e-154 PF00089: Trypsin" amino acids 108 to 272 (165 residues), 81.5 bits, see alignment E=2.5e-26 PF13365: Trypsin_2" amino acids 111 to 245 (135 residues), 125.1 bits, see alignment E=1.2e-39 PF00595: PDZ" amino acids 278 to 362 (85 residues), 33.7 bits, see alignment E=1.2e-11 amino acids 398 to 474 (77 residues), 29.7 bits, see alignment E=2e-10 PF13180: PDZ_2" amino acids 285 to 375 (91 residues), 57.2 bits, see alignment E=4.9e-19 PF17820: PDZ_6" amino acids 311 to 364 (54 residues), 38.3 bits, see alignment 2.8e-13

Best Hits

Swiss-Prot: 44% identical to DEGPL_PSEPG: Probable periplasmic serine endoprotease DegP-like (PputGB1_4377) from Pseudomonas putida (strain GB-1)

KEGG orthology group: None (inferred from 88% identity to xau:Xaut_1661)

Predicted SEED Role

"HtrA protease/chaperone protein"

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 (496 amino acids)

>GFF3166 Periplasmic serine endoprotease DegP (Xanthobacter sp. DMC5)
MPAPFVPSRLLSGRSRLPALLLAAVVAFGGIGSAPLHAAPGKGPDTVADVAEKVMDAVVN
ISTSQNVAPSRSVPAPQLPPGSPYEDFFDEFFKRRPEDGSEQRSRRVSSLGSGFVIDPSG
FIVTNNHVISDADEIFANFNDGSKLKAEVIGRDTKTDLALLKVNPPKPLVAVKFGDSEKL
RVGDWVMAIGNPFGLGGTLTVGVVSARNRDINSGPYDNFIQTDAAINRGNSGGPLFNMEG
EVIGINTAIISPSGGSIGIGFAVPSATAQPVIAQIEQFKEVRRGWIGVRIQPVTEDIAES
LGLGKPRGALIGVVTENSPAAQGGIKAGDVIVKFNGRDIKEVRDLTRTVADTMADSEVEV
VVIRKGKEETLRVKVARMPEDDKPEGSKPAPEAQKVPPRKALGIELSAMSDDLRKRYKIK
SEISGVVITDVDRSSAASDKGLKAGQVIVQVGQEAVASPADVEKQIDALRKAGKRSALFL
VSDGEGKQEFVTVPLN