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44  structures 2367  species 1  interaction 2527  sequences 5  architectures

Family: ArgJ (PF01960)

Summary: ArgJ family

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This is the Wikipedia entry entitled "ArgJ protein family". More...

ArgJ protein family Edit Wikipedia article

ArgJ
PDB 1vz7 EBI.jpg
ornithine acetyltransferase (orf6 gene product - clavulanic acid biosynthesis) from streptomyces clavuligerus
Identifiers
Symbol ArgJ
Pfam PF01960
InterPro IPR002813

In molecular biology, members of the ArgJ protein family are bifunctional protein that catalyses the first (EC 2.3.1.35) and fifth steps (EC 2.3.1.1) in arginine biosynthesis.[1] The structure has been determined for glutamate N-acetyltransferase 2 (ornithine acetyltransferase), an ArgJ-like protein from Streptomyces clavuligerus.[2]

References[edit]

  1. ^ Sakanyan V, Charlier D, Legrain C, Kochikyan A, Mett I, Pierard A, Glansdorff N (March 1993). "Primary structure, partial purification and regulation of key enzymes of the acetyl cycle of arginine biosynthesis in Bacillus stearothermophilus: dual function of ornithine acetyltransferase". J. Gen. Microbiol. 139 (3): 393–402. PMID 8473852. 
  2. ^ Elkins JM, Kershaw NJ, Schofield CJ (January 2005). "X-ray crystal structure of ornithine acetyltransferase from the clavulanic acid biosynthesis gene cluster". Biochem. J. 385 (Pt 2): 565–73. doi:10.1042/BJ20040814. PMC 1134730. PMID 15352873. 

This article incorporates text from the public domain Pfam and InterPro IPR002813

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

ArgJ family Provide feedback

Members of the ArgJ family catalyse the first EC:2.3.1.1 and fifth steps EC:2.3.1.35 in arginine biosynthesis.

Literature references

  1. Sakanyan V, Charlier D, Legrain C, Kochikyan A, Mett I, Pierard A, Glansdorff N; , J Gen Microbiol 1993;139:393-402.: Primary structure, partial purification and regulation of key enzymes of the acetyl cycle of arginine biosynthesis in Bacillus stearothermophilus: dual function of ornithine acetyltransferase. PUBMED:8473852 EPMC:8473852


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002813

ArgJ is a bifunctional protein that catalyses the first EC and fifth steps EC in arginine biosynthesis [PUBMED:8473852]. The structure has been determined for glutamate N-acetyltransferase 2 (ornithine acetyltransferase; EC), an ArgJ-like protein from Streptomyces clavuligerus [PUBMED:15352873].

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...

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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
(139)
Full
(2527)
Representative proteomes NCBI
(2155)
Meta
(2927)
RP15
(273)
RP35
(556)
RP55
(708)
RP75
(817)
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Format an alignment

  Seed
(139)
Full
(2527)
Representative proteomes NCBI
(2155)
Meta
(2927)
RP15
(273)
RP35
(556)
RP55
(708)
RP75
(817)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(139)
Full
(2527)
Representative proteomes NCBI
(2155)
Meta
(2927)
RP15
(273)
RP35
(556)
RP55
(708)
RP75
(817)
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

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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: Enright A
Previous IDs: none
Type: Family
Author: Enright A, Ouzounis C, Bateman A
Number in seed: 139
Number in full: 2527
Average length of the domain: 371.30 aa
Average identity of full alignment: 40 %
Average coverage of the sequence by the domain: 94.80 %

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 25.0 25.0
Trusted cut-off 34.0 28.6
Noise cut-off 21.5 16.8
Model length: 388
Family (HMM) version: 13
Download: download the raw HMM for this family

Species distribution

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Interactions

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

ArgJ

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 ArgJ domain has been found. There are 44 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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