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Aliases & Descriptions for PADI4
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| EC 3.5.3.15 3 | | OTTHUMP00000002482 2 | | PAD 1, 2, 5 | | PAD4 2 | | PADI5 2, 3, 5 | | PDI4 1, 2 | | PDI5 1, 2, 3 |
| | | Descriptions |
|---|
| HL-60 PAD 2, 3 | | PADI-H protein 2 | | Peptidylarginine deiminase IV 3 | | Protein-arginine deiminase type IV 3 | | peptidyl arginine deiminase, type IV 2 | | peptidyl arginine deiminase, type V 1, 2 | | protein-arginine deiminase 2 |
|
| | Search outside databases for aliases for PADI4 genePrevious GC identifers: GC00U991184 GC01P016675 GC01P017015 GC01P017379 |
Summaries for PADI4(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for PADI4: This gene is a member of a gene family which encodes enzymes responsible for the conversion of arginine residues to citrulline residues. This gene may play a role in granulocyte and macrophage development leading to inflammation and immune response. [provided by RefSeq] UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07Function: Catalyzes the citrullination/deimination of arginine residues of proteins. Citrullinates histone H3 at 'Arg-8' and/or 'Arg-17' and histone H4 at 'Arg-3', which prevents their methylation by CARM1 and HRMT1L2/PRMT1 and represses transcription. Citrullinates EP300/P300 at 'Arg-2142', which favors its interaction with NCOA2/GRIP1Gene Wiki entry for PADI4 |
Genomic Location for PADI4
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to
UCSC and
Ensembl,
Transcription factor binding sites according to
SABiosciences) About This Section
| Genomic View: UCSC Golden Path with GeneCards custom track
Transcription factor binding sites upstream to the PADI4 gene 
Entrez Gene cytogenetic band: 1p36.13 Ensembl cytogenetic band: 1p36.13 HGNC cytogenetic band: 1p36.13PADI4 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)
 GeneLoc gene densities for chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01P017507:
(about GC identifiers)
Start:
|
17,507,277 bp from pter |
End:
|
17,563,082 bp from pter |
Size:
|
55,806 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000001.9 NT_004610.18
| Proteins for PADI4
(According to
1UniProtKB,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Enzo Life Sciences,
Abnova,
OriGene and/or,
Abcam,
Biochemical Assays by
Invitrogen,
Millipore,
R&D Systems,
Cell Signaling Technology, and/or
Enzo Life Sciences,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene,
Antibodies by Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Cell Signaling Technology,
Abcam,
Abnova, and/or
Novus Biologicals)
About This Section
| UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07 (See
protein sequence)Recommended Name: Protein-arginine deiminase type-4 Size: 663 amino acids; 74095 Da
Cofactor: Binds 5 calcium ions per subunit
Subcellular location: Cytoplasm. Nucleus. Cytoplasmic granule. Note=Cytoplasmic granules of eosinophils and neutrophils
PDB structures from and Proteopedia :1WD8 (3D)
 1WD9 (3D)
 1WDA (3D)
 2DEW (3D)
 2DEX (3D)
 2DEY (3D)
 2DW5 (3D)
 
Secondary accessions: Q5VTZ8 Q70SX4REFSEQ proteins: NP_036519.2
ENSEMBL proteins: ENSP00000364602 ENSP00000351690 ENSP00000364597
Human Recombinant Proteins               OriGene Purified Recombinant Human Protein: PADI4 
2 Gene Ontology (GO) cellular component terms (links to tree view): About this table
Antibodies for PADI4: Assays for PADI4: | Protein
Domains/ Families for PADI4(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| - Graphical View of Domain Structure for InterPro Entry Q9UM07
ProtoNet protein and cluster: Q9UM07 1 Blocks protein family: IPB004303 Protein-arginine deiminase
UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07Similarity: Belongs to the protein arginine deiminase family | Gene Function for PADI4
(According to MGI Jun 06 2009, UniProtKB,
IUBMB,and/or Genatlas,
shRNA from
OriGene,
Sigma-Aldrich, RNAi from
Sigma-Aldrich,
RNAi Products,
Clones, and
Q-PCR Products
from Invitrogen,
Millipore,
OriGene, and/or
Abnova,
siRNAs from
Applied Biosystems,
SYBR primers from OriGene,
Cell-based Assays from Millipore,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_012387
Applied Biosystems Silencer® siRNAs for PADI4
Sigma-Aldrich siRNA for PADI4  Sigma-Aldrich shRNA for PADI4  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_012387                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_012387                                  untagged cDNA clones in CMV expression vector (see all 3): AF229067 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_012387
UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07Function: Catalyzes the citrullination/deimination of arginine residues of proteins. Citrullinates histone H3 at 'Arg-8' and/or 'Arg-17' and histone H4 at 'Arg-3', which prevents their methylation by CARM1 and HRMT1L2/PRMT1 and represses transcription. Citrullinates EP300/P300 at 'Arg-2142', which favors its interaction with NCOA2/GRIP1Catalytic activity: Protein L-arginine + H(2)O = protein L-citrulline + NH(3)Biophysicochemical properties: Kinetic parameters: KM=0.055 mM for fibrinogen; KM=0.064 mM for filaggrin; Vmax=33.2 umol/h/mg enzyme toward fibrinogen; Vmax=8.0 umol/h/mg enzyme toward filaggrin; pH dependence: Optimum pH is 6.5-9.0;Enzyme Number (IUBMB): EC 3.5.3.15 1 MGI phenotypic allele for Padi4 (no phenotypes)
3 Gene Ontology (GO) molecular function terms (links to tree view): About this table | Pathways & Interactions for PADI4
(Pathways according to Invitrogen
(maps by GeneGo),
Millipore,
Cell Signaling Technology,
Sigma-Aldrich,
KEGG
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Proteins Network according to
SABiosciences,
Interactions according to 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|
Gene Network CentralTM Interacting Genes and Proteins Network for PADI4 
5/7 Interacting proteins for PADI4 (ENSP000003645973) via UniProtKB, MINT, and/or STRING (see all 7
)About this table
5 Gene Ontology (GO) biological process terms (links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006350 | transcription |
IEA | -- | | GO:0006355 | regulation of transcription, DNA-dependent |
IEA | -- | | GO:0006464 | protein modification process |
TAS | 10488123 | | GO:0016568 | chromatin modification |
IEA | -- | | GO:0018101 | peptidyl-citrulline biosynthetic process from peptidyl-arginine |
IEA | -- | About this table
|
Drugs & Compounds for PADI4(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
Sigma-Aldrich, Tocris Bioscience, and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB)
About This Section
|
Browse Tocris compounds for PADI4 4 Novoseek chemical compound relationships for PADI4 gene
About this table
|
Transcripts for PADI4(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
non coding RNAs according to
RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from Invitrogen,
Millipore, and/or
Abnova,
siRNAs from Applied Biosystems,
Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
Tagged/untagged cDNA clones from
OriGene, Expression Assays from Applied Biosystems) About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_012387
Sigma-Aldrich siRNA for PADI4  Sigma-Aldrich shRNA for PADI4  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_012387 REFSEQ mRNAs for PADI4 gene: NM_012387.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_012387               OriGene GFP tagged cDNA clone in CMV expression vector: NM_012387                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_012387                                  untagged cDNA clones in CMV expression vector (see all 3): AF229067  Additional cDNA sequence: AB017919.1 AF229067.1 AK290507.1 AK309637.1 AK314839.1 BC025718.1 6 DOTS entries: DT.200682 DT.92424921 DT.91944157 DT.95097226 DT.95154884 DT.95218477 24/56 AceView cDNA sequences (see all 56
):BF942697 CB241171 BM676574 BX280830 BM713957 AA682801 BU502414 BX492929 BI021411 BX492994 BI836729 AB017919 NM_012387 BI019938 BC025718 BI905950 BX493079 BI025762 CB146134 BI020543 BU600065 AI766115 AW467231 BI910127
highest scoring ESTs for PADI4:AA682801 AB017919 AI766115 AW084484 AW467326 BC025718 BF895958 BF896009 BF896025 BF896041 Unigene Cluster for PADI4: Peptidyl arginine deiminase, type IV Hs.522969 [show with all ESTs]Unigene Representative Sequence: BC025718
GeneLoc Exon Structure
3 Ensembl transcripts including schematic representations: ENST00000375453
ENST00000358829
ENST00000375448
|
Expression for PADI4
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
Sets of similar genes according to GeneDecks,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP,
plus additional links to
SOURCE, and/or
GNF
BioGPS, and/or
EXPOLDB, and/or
UniProtKB,
Expression Assays from
Applied Biosystems
)
About This Section
| PADI4 expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for PADI4
1 / 2 / 3 8 probe-sets matching PADI4 gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: GTGCCCTGAG
SOURCE GeneReport for Unigene cluster: Hs.522969 UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07Tissue specificity: Expressed in eosinophils and neutrophils, not expressed in peripheral monocytes or lymphocytes |
Orthologs for PADI4
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for PADI4 gene from 5 species
About this table Species with no ortholog for PADI4
ENSEMBL Gene Tree for PADI4 | Paralogs for PADI4(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for PADI4 gene
- PADI22 PADI12 PADI62 PADI32
|
SNPs/Variants for PADI4(According to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Genotyping Reagents from
Applied Biosystems)
About This Section
|
HapMap Linkage Disequilibrium images for PADI4 (up to first 250kb)
|
Disorders & Mutations for PADI4
(in which this Gene is Involved, According to
OMIM, UniProtKB,
Novoseek, PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
HGMD, GAD,
HuGE Navigator,
BCGD,
and/or TGDB.)
About This Section
|
OMIM: 605347 disorders: 180300 UniProtKB/Swiss-Prot: PADI4_HUMAN, Q9UM07
PADI4 is thought to be a rheumatoid arthritis susceptibility locus [MIM:180300]. Could have an important role in the pathogenesis of rheumatoid arthritis by increasing citrullination of proteins in rheumatoid arthritis synovial tissues, leading, in a cytokine-rich milieu, to a break in tolerance to citrullinated peptides processed and presented in the appropriate HLA context10 Novoseek disease relationships for PADI4 gene
| Disease |
Score |
Articles |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| rheumatoid arthritis |
78.84 |
38 |
15485997 (4), 17216583 (2), 15077293 (2), 15814578 (2) (see all 24) |
| rheumatic diseases |
59.86 |
2 |
17968335 (1), 16134727 (1) |
| autoimmunity |
47.82 |
2 |
18645041 (2) |
| lupus erythematosus systemic |
38.66 |
2 |
17968335 (1), 15080264 (1) |
| autoimmune diseases |
38.03 |
1 |
17868046 (1) |
| multiple sclerosis |
35.61 |
4 |
16828881 (2), 15080264 (1), 18476880 (1) |
| inflammation |
28.20 |
4 |
16245073 (2), 15814578 (1), 18645041 (1) |
| osteoarthritis |
21.54 |
2 |
17968929 (1) |
| arthritis |
8.51 |
3 |
17968929 (2) |
| leukemia |
0.00 |
3 |
17216583 (1), 16502257 (1) |
About this table
Genetic Association Database: PADI4 Human Genome Epidemiology Navigator: PADI4 (31 documents)
|
Medical News for PADI4(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for PADI4 (in
PubMed.
Associations of this gene to articles via
1Novoseek,
2HGNC,
3Entrez Gene,
4UniProtKB/Swiss-Prot,
5UniProtKB/TrEMBL,
6GAD, and/or
7PharmGKB)
About This Section
| 10/99 PubMed articles for PADI4 gene (see all 99
):- High variability of peptidylarginine deiminase 4 (PADI4) in a healthy white population: characterization of six new variants of PADI4 exons 2-4 by a novel haplotype-specific sequencing-based approach. (PubMed id 15338034)1, 3, 4, 6 Hoppe B....Salama A. (2004)
- Molecular characterization of peptidylarginine deiminase in HL-60 cells induced by retinoic acid and 1alpha,25-dihydroxyvitamin D(3). (PubMed id 10488123)1, 2, 3, 4 Nakashima K.... Yamada M. (1999)
- Functional haplotypes of PADI4, encoding citrullinating enzyme peptidylarginine deiminase 4, are associated with rheumatoid arthritis. (PubMed id 12833157)3, 4, 6 Suzuki A.... Yamamoto K. (2003)
- Genetic and genomic studies of PADI4 in rheumatoid arthritis. (PubMed id 15814578)1, 3, 6 Harney S.M....Brown M.A. (2005)
- A functional haplotype of the PADI4 gene associated with increased rheumatoid arthritis susceptibility in Koreans. (PubMed id 16385500)1, 3, 6 Kang C.P....Bae S.C. (2006)
- Association between PADI4 and rheumatoid arthritis: a replication study. (PubMed id 16200584)1, 3, 6 Ikari K....Kamatani N. (2005)
- Investigation of polymorphisms in the PADI4 gene in determining severity of inflammatory polyarthritis. (PubMed id 15731287)1, 3, 6 Barton A....Silman A. (2005)
- Histone deimination antagonizes arginine methylation. (PubMed id 15339660)1, 3, 4 Cuthbert G.L.... Kouzarides T. (2004)
- A functional haplotype of the PADI4 gene associated with rheumatoid arthritis in a Japanese population is not associated in a United Kingdom population. (PubMed id 15077293)1, 3, 6 Barton A....Worthington J. (2004)
- PADI4 polymorphisms are not associated with rheumatoid arthritis in the Spanish population. (PubMed id 15998632)1, 3, 6 Martinez A....Urcelay E. (2005)
|
Search for PADI4
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing PADI4
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing PADI4
(According to HUGE)
About This Section
| -- |
Specialized Databases showing PADI4(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| About This Section
| --
| Services for PADI4(Reagents available from Applied Biosystems, Antibodies and assays by Cell
Signaling Technology, Abcam, Novus Biologicals, Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich, Enzo Life Sciences, and/or Tocris Bioscience) About This Section
| 
 Products for PADI4:

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Incremental update: 13 Oct 2009
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