Protein Info for GFF741 in Xanthobacter sp. DMC5

Annotation: putative cyclic di-GMP phosphodiesterase PdeB

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 50 100 150 200 250 300 350 400 450 491 transmembrane" amino acids 214 to 235 (22 residues), see Phobius details amino acids 471 to 488 (18 residues), see Phobius details PF12792: CSS-motif" amino acids 20 to 140 (121 residues), 62.5 bits, see alignment E=3.8e-21 PF00563: EAL" amino acids 243 to 475 (233 residues), 211.5 bits, see alignment E=1.2e-66

Best Hits

Predicted SEED Role

"diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s)" in subsystem Bacterial hemoglobins

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 (491 amino acids)

>GFF741 putative cyclic di-GMP phosphodiesterase PdeB (Xanthobacter sp. DMC5)
MVPLAPTLYVSWRFALSTQQEQLNAYALRVLDHTDAVYADAVSALRTIAAMPFPPCSPQH
IRAMLQITEEALSVVNIGYGAGDVVECNSWGILNYRLVRAPVQIEQPDGIGLILNWRPTN
FGTDRAILILRLREYSVLVDQRQFFNEWETSNPFTISEVRTRGGLPIYASYLDRDRHATS
DASDASVEKVSRNWAVTVRQPRITFKEHLQANRAVLLPLSAAIALLSAASGLLVLRRQSS
PRTELAKALKKGELVAHYQPIIELATGRCIGAEALVRWPRADGSQTPPDMFIPLAEETGL
IGRLTDQMLSAVIEDLGDLLRDDPHAHVSINLSAVDITTGRILPVLERVLDGSGIQPRQI
WLEATERSFIDVDGARATLLELRRRGHRTAIDDFGTGYSGLNYIQNLPIDLLKIDRSFIT
AVNTEAPTRDVTPYIIAMGHELKLQIIAEGVETENQAEYLRTQGVSFAQGWLYSKALPAS
AFLVFWTARRR