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16  structures 1787  species 1  interaction 1993  sequences 6  architectures

# Summary: Urocanase

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Urocanase". More...

# Urocanase

Urocanase

Crystal structure of Urocanase from B. subtilis.
Identifiers
Symbol Urocanase
Pfam PF01175
InterPro IPR000193
PROSITE PDOC00947

Urocanase[1] (also known as imidazolonepropionate hydrolase or urocanate hydratase) is the enzyme that catalyzes the second step in the degradation of histidine, the hydration of urocanate into imidazolonepropionate.

urocanate + H2O $\rightleftharpoons$ 4,5-dihydro-4-oxo-5-imidazolepropanoate

Inherited deficiency of urocanase leads to elevated levels of urocanic acid in the urine, a condition known as urocanic aciduria.

Urocanase is found in some bacteria (gene hutU), in the liver of many vertebrates and has also been found in the plant Trifolium repens (white clover). Urocanase is a protein of about 60 Kd, it binds tightly to NAD+ and uses it as an electrophil cofactor. A conserved cysteine has been found to be important for the catalytic mechanism and could be involved in the binding of the NAD+.

## References

1. ^ Retey J (1994). "The urocanase story: a novel role of NAD+ as electrophile". Arch. Biochem. Biophys. 314 (1): 1–16. doi:10.1006/abbi.1994.1405. PMID 7944380.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

# Urocanase

No Pfam abstract.

This tab holds annotation information from the InterPro database.

# InterPro entry IPR023637

Urocanase [PUBMED:7944380] (also known as imidazolonepropionate hydrolase or urocanate hydratase) is the enzyme that catalyzes the second step in the degradation of histidine, the hydration of urocanate into imidazolonepropionate. urocanate + H2O = 4,5-dihydro-4-oxo-5-imidazolepropanoate Urocanase is found in some bacteria (gene hutU), in the liver of many vertebrates and has also been found in the plant Trifolium repens (white clover). Urocanase is a protein of about 60 Kd, it binds tightly to NAD+ and uses it as an electrophil cofactor. A conserved cysteine has been found to be important for the catalytic mechanism and could be involved in the binding of the NAD+.

This enzyme is a symmetric homodimer with tightly bound NAD+ cofactors. Each subunit consists of a typical NAD-binding domain inserted into a larger core domain that forms the dimer interface [PUBMED:15313616].

This entry represents the Urocanase subunit structural domain.

### Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

# Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

# Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

## View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

Seed
(57)
Full
(1993)
Representative proteomes NCBI
(1576)
Meta
(698)
RP15
(165)
RP35
(289)
RP55
(419)
RP75
(520)
Jalview View  View  View  View  View  View  View  View
HTML View  View  View  View  View  View
PP/heatmap 1 View  View  View  View  View
Pfam viewer View  View

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: available, not generated, not available.

## Format an alignment

Seed
(57)
Full
(1993)
Representative proteomes NCBI
(1576)
Meta
(698)
RP15
(165)
RP35
(289)
RP55
(419)
RP75
(520)
Alignment:
Format:
Order:
Sequence:
Gaps:

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

Seed
(57)
Full
(1993)
Representative proteomes NCBI
(1576)
Meta
(698)
RP15
(165)
RP35
(289)
RP55
(419)
RP75
(520)

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

# HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

# Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

# Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

## Curation

 Seed source: Prosite Previous IDs: none Type: Family Author: Finn RD, Bateman A Number in seed: 57 Number in full: 1993 Average length of the domain: 525.80 aa Average identity of full alignment: 53 % Average coverage of the sequence by the domain: 93.68 %

## HMM information

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 23.2 23.2
Trusted cut-off 23.2 23.5
Noise cut-off 23.1 23.1
Model length: 546
Family (HMM) version: 13

# Species distribution

### Sunburst controls

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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