Protein Info for Dshi_0454 in Dinoroseobacter shibae DFL-12

Annotation: coenzyme PQQ biosynthesis protein E (RefSeq)

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 50 100 150 200 250 300 368 TIGR02109: coenzyme PQQ biosynthesis enzyme PqqE" amino acids 4 to 357 (354 residues), 566.8 bits, see alignment E=1.7e-174 PF04055: Radical_SAM" amino acids 13 to 168 (156 residues), 86 bits, see alignment E=5.3e-28 PF13353: Fer4_12" amino acids 16 to 93 (78 residues), 22.2 bits, see alignment E=2.2e-08 TIGR04085: radical SAM additional 4Fe4S-binding SPASM domain" amino acids 240 to 330 (91 residues), 36.2 bits, see alignment E=6.6e-13 PF13186: SPASM" amino acids 240 to 303 (64 residues), 31.2 bits, see alignment E=3.3e-11

Best Hits

Swiss-Prot: 65% identical to PQQE_RUEPO: PqqA peptide cyclase (pqqE) from Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3)

KEGG orthology group: K06139, pyrroloquinoline quinone biosynthesis protein E (inferred from 100% identity to dsh:Dshi_0454)

MetaCyc: 51% identical to glutamate Cgamma--tyrosine C3 ligase (Klebsiella pneumoniae)
RXN-11176 [EC: 1.21.98.4]

Predicted SEED Role

"Coenzyme PQQ synthesis protein E" in subsystem Coenzyme PQQ synthesis or Pyrroloquinoline Quinone biosynthesis

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.21.98.4

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

See A8LNP4 at UniProt or InterPro

Protein Sequence (368 amino acids)

>Dshi_0454 coenzyme PQQ biosynthesis protein E (RefSeq) (Dinoroseobacter shibae DFL-12)
MRPPPPIAMLAELTYRCPLSCPYCSNPIEMARKEAELDTGTWERVFQEAAELGVLQLHLS
GGEPVSRRDIVDLVAAARAAGLYTNLITSGIGLTERRLADLDAAGLDHIQLSLQGTDPAM
ADEIGGYKGGFARKMQVAEWIGAIGFPLTLNAVLHRRNLHQLPRALDMALEMGARRIEVA
TVQFHGWALKNRDALMPTRDQAREATAIVAEARARLKGRLVIDYVPADYHEDYPKRCMGG
WGTSGLNVTPDGTVLPCHAAHSIPHLTFETVLDRSLSDIWYEGMAFNAYRGTDWMSEPCS
SCERKTVDFGGCRCQAMAILGDANATDPVCVKSPHHGALQSQADAHAARDDTPLVYRVSP
GTTPEPVQ