Protein Info for DVU0620 in Desulfovibrio vulgaris Hildenborough JW710

Annotation: endoribonuclease, L-PSP family (TIGR)

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

Best Hits

Swiss-Prot: 46% identical to Y854_PYRHO: RutC family protein PH0854 (PH0854) from Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)

KEGG orthology group: None (inferred from 100% identity to dvu:DVU0620)

MetaCyc: 40% identical to 2-iminobutanoate/2-iminopropanoate deaminase monomer (Salmonella enterica enterica serovar Typhimurium str. LT2)
Tryptophanase. [EC: 3.5.99.10, 4.1.99.1, 4.1.99.2, 4.3.1.13, 4.3.1.17, 4.3.1.18, 4.3.3.8, 4.4.1.1, 4.4.1.13, 4.4.1.15, 4.4.1.25, 4.4.1.28, 4.4.1.35, 4.5.1.2]; 3.5.99.10,4.3.1.-,4.3.1.19,4.4.1.1,4.4.1.1,4.4.1.2,3.5.99.7,4.4.1.11 [EC: 3.5.99.10, 4.1.99.1, 4.1.99.2, 4.3.1.13, 4.3.1.17, 4.3.1.18, 4.3.3.8, 4.4.1.1, 4.4.1.13, 4.4.1.15, 4.4.1.25, 4.4.1.28, 4.4.1.35, 4.5.1.2, 3.5.99.7, 4.3.1.19, 4.4.1.11, 4.4.1.2]

Predicted SEED Role

No annotation

MetaCyc Pathways

superpathway of branched chain amino acid biosynthesis (16/17 steps found)
superpathway of L-isoleucine biosynthesis I (12/13 steps found)
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II (13/15 steps found)
aspartate superpathway (20/25 steps found)
L-isoleucine biosynthesis I (from threonine) (6/7 steps found)
L-serine degradation (3/3 steps found)
L-tryptophan degradation II (via pyruvate) (3/3 steps found)
L-threonine degradation I (5/6 steps found)
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I (13/18 steps found)
superpathway of L-threonine metabolism (13/18 steps found)
D-serine degradation (2/3 steps found)
L-cysteine degradation II (2/3 steps found)
L-methionine degradation II (2/3 steps found)
glycine degradation (2/3 steps found)
L-methionine biosynthesis II (4/6 steps found)
superpathway of S-adenosyl-L-methionine biosynthesis (6/9 steps found)
superpathway of L-methionine biosynthesis (transsulfuration) (6/9 steps found)
seleno-amino acid biosynthesis (plants) (3/5 steps found)
superpathway of L-homoserine and L-methionine biosynthesis (5/8 steps found)
glycine betaine degradation III (4/7 steps found)
sulfolactate degradation III (1/3 steps found)
purine nucleobases degradation II (anaerobic) (16/24 steps found)
L-methionine biosynthesis I (2/5 steps found)
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis (2/5 steps found)
superpathway of L-cysteine biosynthesis (mammalian) (2/5 steps found)
L-mimosine degradation (4/8 steps found)
glycine betaine degradation I (4/8 steps found)
superpathway of sulfolactate degradation (2/6 steps found)
L-cysteine biosynthesis VI (reverse transsulfuration) (2/7 steps found)
glutathione-mediated detoxification I (2/8 steps found)
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae) (3/10 steps found)
superpathway of L-methionine salvage and degradation (4/16 steps found)
superpathway of seleno-compound metabolism (6/19 steps found)
hypoglycin biosynthesis (2/14 steps found)
cyclosporin A biosynthesis (1/15 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 4.1.99.1, 4.3.1.17, 4.4.1.15

Use Curated BLAST to search for 3.5.99.10 or 3.5.99.7 or 4.1.99.1 or 4.1.99.2 or 4.3.1.13 or 4.3.1.17 or 4.3.1.18 or 4.3.1.19 or 4.3.3.8 or 4.4.1.1 or 4.4.1.11 or 4.4.1.13 or 4.4.1.15 or 4.4.1.2 or 4.4.1.25 or 4.4.1.28 or 4.4.1.35 or 4.5.1.2

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 Q72EF8 at UniProt or InterPro

Protein Sequence (127 amino acids)

>DVU0620 endoribonuclease, L-PSP family (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MADRYPILPGGAPAPVAPYSPGMVCGSFLFVSGQLPLDAATGVLIEGDIRERTRQALRNM
QAVVRAAGCELSCAVRVNIYLADMNDFAAVNEVYKTFFCKPYPARTAIQAAALPLGSDIL
IDGIFAL