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Tchem
PADI4
Protein-arginine deiminase type-4

Protein Summary
Description
Catalyzes the citrullination/deimination of arginine residues of proteins such as histones, thereby playing a key role in histone code and regulation of stem cell maintenance. Citrullinates histone H1 at 'Arg-54' (to form H1R54ci), histone H3 at 'Arg-2', 'Arg-8', 'Arg-17' and/or 'Arg-26' (to form H3R2ci, H3R8ci, H3R17ci, H3R26ci, respectively) and histone H4 at 'Arg-3' (to form H4R3ci). Acts as a key regulator of stem cell maintenance by mediating citrullination of histone H1: citrullination of 'Arg-54' of histone H1 (H1R54ci) results in H1 displacement from chromatin and global chromatin decondensation, thereby promoting pluripotency and stem cell maintenance. Promotes profound chromatin decondensation during the innate immune response to infection in neutrophils by mediating formation of H1R54ci. Citrullination of histone H3 prevents their methylation by CARM1 and HRMT1L2/PRMT1 and represses transcription. Citrullinates EP300/P300 at 'Arg-2142', which favors its interaction with NCOA ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000375448
  • ENSP00000364597
  • ENSG00000159339
  • ENST00000628229
  • ENSP00000487021
  • ENSG00000280908

Symbol
  • PAD4
  • PADI5
  • PDI5
  • PAD
  • PAD4
  • PDI4
  • PDI5
  • PADI5
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
biological process
0.79
biological term
0.74
protein domain
0.73
tissue sample
0.59
PubMedID
0.57


Related Tools
Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 504.11   (req: < 5)
Gene RIFs: 120   (req: <= 3)
Antibodies: 453   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 504.11   (req: >= 5)
Gene RIFs: 120   (req: > 3)
Antibodies: 453   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 15
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 11
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (6)
Items per page:
1 – 5 of 6
GWAS Trait
EFO ID
ENSG ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
6
4
3
1.1
95.5
6
4
3
1.1
95.5
basophil count
2
1
2
64.5
basophil count
2
1
2
64.5
basophil percentage of leukocytes
1
1
1
42.3
Items per page:
1 – 5 of 6
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
3
1.1
95.5
3
1.1
95.5
basophil count
2
64.5
basophil count
2
64.5
basophil percentage of leukocytes
1
42.3
Orthologs (9)
1 – 5 of 9
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
peptidyl arginine deiminase 4
VGNC:11598
456530
Mouse
MGI:1338898
18602
Rat
RGD:3290
29512
Dog
peptidyl arginine deiminase 4
VGNC:44237
606921
Horse
peptidyl arginine deiminase 4
VGNC:21130
100049826
Species
Name
OMA
EggNOG
Inparanoid
Chimp
peptidyl arginine deiminase 4
Mouse
Rat
Dog
peptidyl arginine deiminase 4
Horse
peptidyl arginine deiminase 4
Protein Structure (18 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q9UM07-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 18
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (3)
Chromatin modifying enzymes (R-HSA-3247509)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 2 of 2
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Chromatin modifying enzymes
Reactome
Chromatin organization
Name
Explore in Pharos
Explore in Source
Chromatin modifying enzymes
Chromatin organization
Protein-Protein Interactions (73)
1 – 10 of 73
PADI3
Tchem
Family: Enzyme
Novelty: 0.01110139
p_int: 1
Score: 0.435
Data Source: BioPlex,STRINGDB
TP53
Tchem
Family: TF
Novelty: 0.00001907
Score: 0.793
Data Source: STRINGDB
PTPN22
Tchem
Family: Enzyme
Novelty: 0.00168847
Score: 0.718
Data Source: STRINGDB
PRTN3
Tchem
Family: Enzyme
Novelty: 0.00022728
Score: 0.683
Data Source: STRINGDB
HLA-DRB1
Tbio
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
HLA-DRB1
Tchem
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
HLA-DRB1
Tbio
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
HLA-DRB1
Tbio
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
HLA-DRB1
Tbio
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
HLA-DRB1
Tbio
Novelty: 0.00240724
Score: 0.669
Data Source: STRINGDB
Publication Statistics
PubMed Score  504.11

PubMed score by year
PubTator Score  298.75

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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