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Aliases & Descriptions for KDM4A
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| EC 1.14.11.- 3 | | JHDM3A 1, 2, 3 | | JMJD2 2, 3 | | JMJD2A 2, 3 | | KIAA0677 1, 2, 3 | | OTTHUMP00000008810 2 |
| | | Descriptions |
|---|
| JmjC domain-containing histone demethylation protein 3A 3 | | Jumonji domain-containing protein 2A 3 | | jumonji C domain-containing histone demethylase 3A 2 | | jumonji domain containing 2 1, 2 | | jumonji domain containing 2A 1, 2 | | lysine (K)-specific demethylase 4A 2 | | lysine-specific demethylase 4A 1 |
|
| | Search outside databases for aliases for KDM4A gene |
Summaries for KDM4A(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for KDM4A: This gene is a member of the Jumonji domain 2 (JMJD2) family and encodes a protein containing a JmjN domain, a JmjC domain, a JD2H domain, two TUDOR domains, and two PHD-type zinc fingers. This nuclear protein functions as a trimethylation-specific demethylase, converting specific trimethylated histone residues to the dimethylated form, and as a transcriptional repressor. [provided by RefSeq] UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164Function: Histone demethylase that specifically demethylates 'Lys-9' and 'Lys-36' residues of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27' nor H4 'Lys-20'. Demethylates trimethylated H3 'Lys-9' and H3 'Lys-36' residue, while it has no activity on mono- and dimethylated residues. Demethylation of Lys residue generates formaldehyde and succinate. Participates in transcriptional repression of ASCL2 and E2F-responsive promoters via the recruitment of histone deacetylases and NCOR1, respectivelyGene Wiki entry for KDM4A (JMJD2A) |
Genomic Location for KDM4A
(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
Entrez Gene cytogenetic band: 1p34.1 Ensembl cytogenetic band: 1p34.2 HGNC cytogenetic band: 1p34.1KDM4A 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 GC01P043889:
(about GC identifiers)
Start:
|
43,888,384 bp from pter |
End:
|
43,943,776 bp from pter |
Size:
|
55,393 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000001.9 NT_032977.8
| Proteins for KDM4A
(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: KDM4A_HUMAN, O75164 (See
protein sequence)Recommended Name: Lysine-specific demethylase 4A Size: 1064 amino acids; 120720 Da
Cofactor: Binds 1 Fe(2+) ion per subunit
Subunit: Interacts with histone deacetylase proteins HDAC1, HDAC2 and HDAC3. Interacts with RB and NCOR1. Interacts with HTLV-1 Tax protein
Subcellular location: Nucleus
PDB structures from and Proteopedia :2GF7 (3D)
 2GFA (3D)
 2GP3 (3D)
 2GP5 (3D)
 2OQ6 (3D)
 2OQ7 (3D)
 2OS2 (3D)
 2OT7 (3D)
 2OX0 (3D)
 2P5B (3D)
 2PXJ (3D)
 2Q8C (3D)
 2Q8D (3D)
 2Q8E (3D)
 2QQR (3D)
 2QQS (3D)
 2VD7 (3D)
 
Secondary accessions: Q5VVB1Post-translational modifications:
View phosphorylation sites using PhosphoSite2
REFSEQ proteins: NP_055478.2
ENSEMBL proteins: ENSP00000361473
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
3 Gene Ontology (GO) cellular component terms (links to tree view): About this table
Antibodies for KDM4A: Assays for KDM4A: | Protein
Domains/ Families for KDM4A(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 O75164
ProtoNet protein and cluster: O75164 2 Blocks protein families: IPB003347 Transcription factor jumonji IPB003349 Transcription factor jumonji
UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164Domain: The 2 Tudor domains recognize and bind methylated histone H3 'Lys-4' residue. Double Tudor domain has an interdigitated structure and the unusual fold is required for its ability to bind methylated histone tails. Trimethylated H3 'Lys-4' is bound in a cage of 3 aromatic residues, 2 of which are from the Tudor domain 2, while the binding specificity is determined by side-chain interactions involving residues from the Tudor domain 1. The Tudor domains are able to bind trimethylated histone H3 'Lys-4', trimethylated histone H3 'Lys-9', di- and trimethylated H4 'Lys-20'Similarity: Belongs to the JHDM3 histone demethylase familySimilarity: Contains 1 JmjC domainSimilarity: Contains 1 JmjN domainSimilarity: Contains 2 PHD-type zinc fingersSimilarity: Contains 2 Tudor domains | Gene Function for KDM4A
(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_014663
Applied Biosystems Silencer® siRNAs for KDM4A
Sigma-Aldrich siRNA and siRNA Panels for KDM4A  Sigma-Aldrich shRNA for KDM4A  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_014663                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_014663                                  untagged cDNA clone in CMV expression vector: NM_014663 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_014663
UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164Function: Histone demethylase that specifically demethylates 'Lys-9' and 'Lys-36' residues of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27' nor H4 'Lys-20'. Demethylates trimethylated H3 'Lys-9' and H3 'Lys-36' residue, while it has no activity on mono- and dimethylated residues. Demethylation of Lys residue generates formaldehyde and succinate. Participates in transcriptional repression of ASCL2 and E2F-responsive promoters via the recruitment of histone deacetylases and NCOR1, respectivelyEnzyme Number (IUBMB): EC 1.14.11.- 5/9 Gene Ontology (GO) molecular function terms (links to tree view) (see all 9
): About this table | Pathways & Interactions for KDM4A
(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 KDM4A 
5/34 Interacting proteins for KDM4A (O751641, 2 ENSP000003614733) via UniProtKB, MINT, and/or STRING (see all 34
)About this table
5/6 Gene Ontology (GO) biological process terms (links to tree view) (see all 6
): About this table
|
Drugs & Compounds for KDM4A(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 KDM4A 1 Novoseek chemical compound relationship for KDM4A gene
| Compound |
Score |
Articles |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| lysine |
36.62 |
1 |
16603238 (1) |
About this table
|
Transcripts for KDM4A(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_014663
Sigma-Aldrich siRNA and siRNA Panels for KDM4A  Sigma-Aldrich shRNA for KDM4A  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_014663 REFSEQ mRNAs for KDM4A gene: NM_014663.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_014663               OriGene GFP tagged cDNA clone in CMV expression vector: NM_014663                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_014663                                  untagged cDNA clone in CMV expression vector: NM_014663  Additional cDNA sequence: AB014577.1 AK294596.1 AK300039.1 AK310295.1 BC002558.2 CR596058.1 10 DOTS entries: DT.415303 DT.91975395 DT.86854217 DT.95338656 DT.97811185 DT.100000158 DT.92024385 DT.95329546 DT.97815843 DT.97843731 24/147 AceView cDNA sequences (see all 147
):AA505063 BU543629 T60254 AI623088 BM459303 BG035010 BQ440865 AA481235 BQ229739 AI202395 AI263358 CA488018 AA505761 AI384099 BM826345 AI185891 BE252880 NM_014663 CD724275 AA481160 Z70219 BQ216769 BX471167 BP357225 Unigene Cluster for KDM4A: Lysine (K)-specific demethylase 4A Hs.155983 [show with all ESTs]Unigene Representative Sequence: NM_014663
GeneLoc Exon Structure
5/8 Alternative Splicing Database (ASD) splice patterns (SP) for KDM4A (see all 8
)
| ExUns: | 1 | ^ | 2a | · | 2b | · | 2c | · | 2d | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13 | ^ | 14 | ^ | 15 | ^ | 16a | · | 16b | ^ | 17 | ^ | 18a | · | 18b | ^ | 19 | ^ | 20 | ^ | 21 | ^ | |
| SP1: | |   | - |   | - |   | - |   | - |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | - |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
| ExUns: | 22a | · | 22b | ^ | 23a | · | 23b | · | 23c | ^ | 24a | · | 24b | |
| SP1: | - |   | |   | - |   | |   | - |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for KDM4A
1 Ensembl transcript including schematic representation: ENST00000372396
|
Expression for KDM4A
(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
| KDM4A expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for KDM4A
1 / 2 5 probe-sets matching KDM4A gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: CAGGGGCTGG
SOURCE GeneReport for Unigene cluster: Hs.155983 UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164Tissue specificity: Ubiquitous |
Orthologs for KDM4A
(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 KDM4A gene from 5/11 species (see all 11
)
About this table Species with no ortholog for KDM4A
ENSEMBL Gene Tree for KDM4A | Paralogs for KDM4A(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for KDM4A gene
- KDM4D2 JARID22 KDM4C2 KDM4B2
|
SNPs/Variants for KDM4A(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 KDM4A (up to first 250kb)
|
Disorders & Mutations for KDM4A
(in which this Gene is Involved, According to
OMIM, UniProtKB,
PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
HGMD, GAD,
HuGE Navigator,
BCGD,
and/or TGDB.)
About This Section
|
OMIM: 609764
|
Medical News for KDM4A(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for KDM4A (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
| 10/25 PubMed articles for KDM4A gene (see all 25
):- Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9734811)2, 3, 4 Ishikawa K....Ohara O. (1998)
- JMJD2A is a novel N-CoR-interacting protein and is involved in repression of the human transcription factor achaete scute-like homologue 2 (ASCL2/Hash2). (PubMed id 16024779)1, 3, 4 Zhang D.... Wong J. (2005)
- Functional characterization of JMJD2A, a histone deacetylase- and retinoblastoma-binding protein. (PubMed id 15927959)1, 3, 4 Gray S.G.... Dangond F. (2005)
- Identification and characterization of JMJD2 family genes in silico. (PubMed id 15138608)1, 2, 3 Katoh M. and Katoh M. (2004)
- Structural insights into histone demethylation by JMJD2 family members. (PubMed id 16677698)1, 3, 4 Chen Z.... Zhang G. (2006)
- Recognition of histone H3 lysine-4 methylation by the double Tudor domain of JMJD2A. (PubMed id 16601153)1, 3, 4 Huang Y.... Xu R.-M. (2006)
- Reversal of histone lysine trimethylation by the JMJD2 family of histone demethylases. (PubMed id 16603238)1, 3, 4 Whetstine J.R.... Shi Y. (2006)
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)3, 4 Gregory S.G.... Bentley D.R. (2006)
- Tudor, MBT and chromo domains gauge the degree of lysine methylation. (PubMed id 16415788)3, 4 Kim J....Bedford M.T. (2006)
- Quantitative phosphoproteome analysis using a dendrimer conjugation chemistry and tandem mass spectrometry. (PubMed id 16094384)3, 4 Tao W.A.... Aebersold R. (2005)
|
Search for KDM4A
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing KDM4A
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing KDM4A
(According to HUGE)
About This Section
| |
Specialized Databases showing KDM4A(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 KDM4A(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 KDM4A:

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