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62  structures 2525  species 1  interaction 5444  sequences 17  architectures

Family: IU_nuc_hydro (PF01156)

Summary: Inosine-uridine preferring nucleoside hydrolase

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Inosine-uridine preferring nucleoside hydrolase Provide feedback

No Pfam abstract.

Literature references

  1. Degano M, Gopaul DN, Scapin G, Schramm VL, Sacchettini JC; , Biochemistry 1996;35:5971-5981.: Three-dimensional structure of the inosine-uridine nucleoside N-ribohydrolase from Crithidia fasciculata. PUBMED:8634238 EPMC:8634238


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001910

Inosine-uridine preferring nucleoside hydrolase (EC) (IU-nucleoside hydrolase or IUNH) is an enzyme first identified in protozoan [PUBMED:8634237] that catalyses the hydrolysis of all of the commonly occuring purine and pyrimidine nucleosides into ribose and the associated base, but has a preference for inosine and uridine as substrates. This enzyme is important for these parasitic organisms, which are deficient in de novo synthesis of purines, to salvage the host purine nucleosides. IUNH from Crithidia fasciculata has been sequenced and characterised, it is an homotetrameric enzyme of subunits of 34 Kd. An histidine has been shown to be important for the catalytic mechanism, it acts as a proton donor to activate the hypoxanthine leaving group.

A highly conserved region located in the N-terminal extremity contains four conserved aspartates that have been shown [PUBMED:8634238] to be located in the active site cavity.

IUNH is evolutionary related to a number of uncharacterised proteins from various biological sources.

This entry represents the structural domain of IUNH.

Domain organisation

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

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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...

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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
(118)
Full
(5444)
Representative proteomes NCBI
(3860)
Meta
(1059)
RP15
(384)
RP35
(731)
RP55
(1025)
RP75
(1248)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(118)
Full
(5444)
Representative proteomes NCBI
(3860)
Meta
(1059)
RP15
(384)
RP35
(731)
RP55
(1025)
RP75
(1248)
Alignment:
Format:
Order:
Sequence:
Gaps:
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Download options

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
(118)
Full
(5444)
Representative proteomes NCBI
(3860)
Meta
(1059)
RP15
(384)
RP35
(731)
RP55
(1025)
RP75
(1248)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

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

External links

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.

Pfam alignments:

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.

Note: You can also download the data file for the tree.

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 View help on the curation process

Seed source: Prosite
Previous IDs: none
Type: Domain
Author: Finn RD, Bateman A
Number in seed: 118
Number in full: 5444
Average length of the domain: 302.10 aa
Average identity of full alignment: 28 %
Average coverage of the sequence by the domain: 95.00 %

HMM information View help on HMM parameters

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 27.8 27.8
Trusted cut-off 27.8 27.9
Noise cut-off 27.7 27.7
Model length: 313
Family (HMM) version: 14
Download: download the raw HMM for this family

Species distribution

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Interactions

There is 1 interaction for this family. More...

IU_nuc_hydro

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the IU_nuc_hydro domain has been found. There are 62 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.

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