Protein Info for GFF3126 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 50 100 150 200 250 300 350 400 450 500 527 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details TIGR02037: peptidase Do" amino acids 57 to 513 (457 residues), 462.8 bits, see alignment E=6.1e-143 PF13365: Trypsin_2" amino acids 142 to 275 (134 residues), 118.7 bits, see alignment E=1.1e-37 PF00089: Trypsin" amino acids 143 to 301 (159 residues), 72.5 bits, see alignment E=1.4e-23 PF00595: PDZ" amino acids 309 to 392 (84 residues), 44.5 bits, see alignment E=5.1e-15 amino acids 434 to 484 (51 residues), 31.9 bits, see alignment 4.2e-11 PF13180: PDZ_2" amino acids 314 to 403 (90 residues), 60.9 bits, see alignment E=3.5e-20 amino acids 433 to 502 (70 residues), 41.8 bits, see alignment E=3.4e-14 PF17820: PDZ_6" amino acids 341 to 377 (37 residues), 36.7 bits, see alignment 8.7e-13 amino acids 454 to 499 (46 residues), 37.1 bits, see alignment 6.5e-13

Best Hits

KEGG orthology group: None (inferred from 88% identity to xau:Xaut_3516)

Predicted SEED Role

"Serine protease precursor MucD/AlgY associated with sigma factor RpoE" in subsystem Transcription initiation, bacterial sigma factors

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 (527 amino acids)

>GFF3126 Periplasmic serine endoprotease DegP (Xanthobacter sp. DMC5)
MTRSPSTPSVTKRNRRAMLASVFGLALAGVVAGQFIPPANTPALAQITTSQPANTFSFAD
IVEKVSPAVVSVKVKKDIGDQQMAMGGEGLGGNVPPQIEEFLKRFGFGQGGPGMGPGGPG
GPGMGPRGGMGPKGERPVVGQGSGFIISADGYVVTNNHVVDGADEVDVTTTDGKEYVAKV
IGTDPRTDVALLKIDNVTNMPWVKLADGAPRVGDWVIAVGNPFGLGGTVTAGIVSARGRD
IGSGPYDDFIQIDAPINRGNSGGPTFSLNGEVIGMNTAIVSPSGGNVGIAFAIPSETVKT
VVTQLRDKGSVARGYIGVQIQPVTDDLASGLGIKSAEGALVAQVQPNTAGAKAGLKAGDV
VVKVNGEPIKEARELSRKVGMMKPGAEVQLSVIRDTKPMDIKVVLDQLPNEQVASRTNTP
QGEDDSAGNKDMPRLGLQLAPSKSVQGAGGEGVVVTGVEPNGPAAQRGLKTGDVILKVGD
KTVATPKDVRDGLAAAKAENRKAVLIQVKSGEGVRFVAISLEGKAKG