Combrex Enter Keyword, gene symbol, or identifier (more options; Help )
Enter species name
Gene functional status (select)
Phenotype association (select)[View list of phenotypes]
Check to restrict search to:
Genes in Category A-C and Emerging/Re-Emerging pathogens
Genes in curated Protein Clusters
Genes with predictions submitted to COMBREX
Genes with solved structures in PDB
Genes with Pfam domains shared with human proteins
Genes with products purified by PSI
Genes cloned by PSI
close options


Gene HP0005 from Helicobacter pylori 26695: OMP decarboxylase; OMPDCase; OMPdecase
Member of NCBI Protein Clusters PRK00230(See COMBREX Page ) (See NCBI page)
NCBI Entrez GeneID 898802
UniProtKB accession
RefSeq Protein accession NP_206807.1 (PROVISIONAL)
Gene Symbol(s)
  • symbol: HP0005
  • locus tag: HP0005
Organism Helicobacter pylori 26695 (NCBI TaxID: 85962)
Other Cross References:
  • S
    Structure(s) available in PDB:
  • C
    Gene cloned by a participant in the Protein Structure Initiative (PSI): TargetDB. (To obtain a clone, please contact the PSI:Biology-Materials Repository.)
  • U
    Protein purified by a participant in the Protein Structure Initiative (PSI): TargetDB. (If you are interested in collaborating to obtain the protein, please contact the Northeast Structural Genomics consortium).
  • Protein described in EcoCyc:
Initiate the grant application process for experimentally validating this gene (Important notice about COMBREX grants.)
Contribute a predicted function for this gene (free text, GO terms, or EC number) (info). Be sure to check the list of current predicted functions in the section immediately below beforehand.
Nominate this gene for the Gold Standard Gene Database (if you believe it has been experimentally validated) (info).
Post a comment about this gene to appear on this page (info).
Source Predicted function(s)
NCBI Protein Cluster Prediction orotidine 5'-phosphate decarboxylase
Prof. Vitkup / Confidence:0.762 (References: 19935659, 16507154)
Berkeley Phylogenomics Group GO:0000287 magnesium ion binding / (References: 19435885)
Berkeley Phylogenomics Group GO:0004590 orotidine-5'-phosphate decarboxylase activity / (References: 19435885)
Berkeley Phylogenomics Group GO:0033982 3-dehydro-L-gulonate-6-phosphate decarboxylase activity / (References: 19435885)
Berkeley Phylogenomics Group Orotidine-5'-phosphate decarboxylase. / (References: 19435885)
Berkeley Phylogenomics Group GO:0004750 ribulose-phosphate 3-epimerase activity / (References: 19435885)
Berkeley Phylogenomics Group GO:0004588 orotate phosphoribosyltransferase activity / (References: 19435885)
Berkeley Phylogenomics Group Ribulose-phosphate 3-epimerase. / (References: 19435885)
Berkeley Phylogenomics Group GO:0005515 protein binding / (References: 19435885)
Functional Status blueblue (function predicted, no experimental evidence)
Source of prediction NCBI Protein Clusters info
EC number
BLASTP hits to experimentally validated proteins
green pyrF from Bacillus subtilis subsp. subtilis str. 168
(%_identity=38.36; E_val=4e-35; BitScore=142.0)

other hits with E-value < 1e-05
Share the same Pfam domain composition with the following experimentally validated proteins
blue pyrF from Salmonella enterica subsp. enterica serovar Typhi str. Ty2

to see the rest 105 genes click here
GO terms
  • MF: GO:0003824 : catalytic activity : IEA
  • MF: GO:0016829 : lyase activity : IEA
  • BP: GO:0006221 : pyrimidine nucleotide biosynthetic process : IEA
  • BP: GO:0008152 : metabolic process : IEA
  • BP: GO:0006207 : 'de novo' pyrimidine base biosynthetic process : IEA
  • MF: GO:0004590 : orotidine-5'-phosphate decarboxylase activity : IEA
  • MF: GO:0016831 : carboxy-lyase activity : IEA
Domain Structure from CDD
  • OMP_decarboxylase_like: Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) t.... (More)

See domain structure on NCBI Conserved Domain Database
Domain structure from Pfam
See domain structure on Pfam Database
The table at right lists genes that may be "functionally linked to" (i.e., participate in a common biological process, or form a protein complex with) the subject gene of this page, as determined by two sequence-independent methods, including phylogenetic profiling and operon membership (determined by OperonDB). (Info.) These linkages may also be viewed graphically using the program VisANT, by clicking on the headers of the table. Note: VisANT requires Java. To install the latest version of Java, see
phylogenetic profile
panCpantoate--beta-alanine ligase
HP1011dihydroorotate dehydrogenase 2 
Metabolic Annotation from Palsson Lab

Metabolic Reaction: OMPDC

orotidine-5-phosphate decarboxylase
h[c] + orot5p[c] -> co2[c] + ump[c]
UTP/CTP de novo Synthesis

Source: Ported to COMBREX by Segre's Lab