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Aliases & Descriptions for KDM4B
(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 | | FLJ44906 2 | | JHDM3B 3 | | JMJD2B 2, 3 | | KIAA0876 1, 2, 3 |
| | | Descriptions |
|---|
| JmjC domain-containing histone demethylation protein 3B 3 | | Jumonji domain-containing protein 2B 3 | | jumonji domain containing 2B 1, 2 | | lysine (K)-specific demethylase 4B 2 | | lysine-specific demethylase 4B 1 |
|
| | Search outside databases for aliases for KDM4B gene |
Summaries for KDM4B(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| UniProtKB/Swiss-Prot: KDM4B_HUMAN, O94953Function: Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Only able to demethylate trimethylated H3 'Lys-9', with a weaker activity than KDM4A, KDM4C and KDM4D. Demethylation of Lys residue generates formaldehyde and succinateGene Wiki entry for KDM4B (JMJD2B) |
Genomic Location for KDM4B
(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: 19p13.3 Ensembl cytogenetic band: 19p13.3 HGNC cytogenetic band: 19p13.3KDM4B 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 19 GeneLoc Exon Structure GeneLoc location for GC19P004921:
(about GC identifiers)
Start:
|
4,920,132 bp from pter |
End:
|
5,104,606 bp from pter |
Size:
|
184,475 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000019.8 NT_011255.14
| Proteins for KDM4B
(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: KDM4B_HUMAN, O94953 (See
protein sequence)Recommended Name: Lysine-specific demethylase 4B Size: 1096 amino acids; 121897 Da
Cofactor: Binds 1 Fe(2+) ion per subunit (By similarity)
Subcellular location: Nucleus
Sequence caution: Sequence=AAC33799.1; Type=Erroneous gene model prediction;
Secondary accessions: O75274 Q6P3R5 Q9P1V1 Q9UF40Alternative splicing: 2 isoforms: O94953-1 O94953-2 Post-translational modifications:
View phosphorylation sites using PhosphoSite2
REFSEQ proteins: NP_055830.1
ENSEMBL proteins: ENSP00000371178 ENSP00000159111
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
1 Gene Ontology (GO) cellular component term (links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005634 | nucleus |
IEA | -- | About this table
Antibodies for KDM4B: Assays for KDM4B: | Protein
Domains/ Families for KDM4B(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 O94953
ProtoNet protein and cluster: O94953 3 Blocks protein families: IPB001965 Zn-finger-like IPB003347 Transcription factor jumonji IPB003349 Transcription factor jumonji
UniProtKB/Swiss-Prot: KDM4B_HUMAN, O94953Domain: The 2 Tudor domains recognize and bind methylated histones. Double Tudor domain has an interdigitated structure and the unusual fold is required for its ability to bind methylated histone tails (By similarity)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 KDM4B
(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 vectors (see all 2): NM_015015
Applied Biosystems Silencer® siRNAs for KDM4B
Sigma-Aldrich siRNA and siRNA Panels for KDM4B  Sigma-Aldrich shRNA for KDM4B  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_015015                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_015015                                  untagged cDNA clone in CMV expression vector: NM_015015 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_015015
UniProtKB/Swiss-Prot: KDM4B_HUMAN, O94953Function: Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Only able to demethylate trimethylated H3 'Lys-9', with a weaker activity than KDM4A, KDM4C and KDM4D. Demethylation of Lys residue generates formaldehyde and succinateEnzyme Number (IUBMB): EC 1.14.11.- 5/7 Gene Ontology (GO) molecular function terms (links to tree view) (see all 7
): About this table | Pathways & Interactions for KDM4B
(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
|
5 Interacting proteins for KDM4B (ENSP000001591113 O949532) via UniProtKB, MINT, and/or STRINGAbout this table
4 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:0016568 | chromatin modification |
IEA | -- | | GO:0055114 | oxidation reduction |
IEA | -- | About this table
|
Drugs & Compounds for KDM4B(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 KDM4B
|
Transcripts for KDM4B(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 vectors (see all 2): NM_015015
Sigma-Aldrich siRNA and siRNA Panels for KDM4B  Sigma-Aldrich shRNA for KDM4B  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_015015 REFSEQ mRNAs for KDM4B gene: NM_015015.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_015015               OriGene GFP tagged cDNA clone in CMV expression vector: NM_015015                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_015015                                  untagged cDNA clone in CMV expression vector: NM_015015  Additional cDNA sequence: AB020683.2 AF052144.1 AK026040.1 AK090405.1 AK126854.1 AL133622.1 AL831872.1 BC015378.1 BC040014.1 BC046167.1 BC063889.1 BC136611.1 BC144292.1 CR592462.1 14 DOTS entries: DT.95268131 DT.100673094 DT.91736535 DT.100782044 DT.75166336 DT.97842572 DT.99929060 DT.91736528 DT.91894949 DT.100025963 DT.92010446 DT.101967033 DT.121459830 DT.97798143 24/63 AceView cDNA sequences (see all 63
):BC063889 BM992894 BQ219578 BF868628 AW450344 AA884638 CB158429 AL831872 BM801857 AI939571 BG236071 BU844833 CA307451 AI658783 AI362737 BI020470 BE672463 AA326284 AI684636 BM703561 BF313933 BE261870 BQ225977 BM703553 Unigene Cluster for KDM4B: Lysine (K)-specific demethylase 4B Hs.654816 [show with all ESTs]Unigene Representative Sequence: NM_015015
GeneLoc Exon Structure
5/13 Alternative Splicing Database (ASD) splice patterns (SP) for KDM4B (see all 13
)
| ExUns: | 1 | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | ^ | 11a | · | 11b | ^ | 12 | ^ | 13a | · | 13b | ^ | 14a | · | 14b | ^ | 15 | ^ | 16 | ^ | 17 | ^ | 18 | ^ | 19 | ^ | 20 | ^ | 21a | · | 21b | · | |
| SP1: | |   | - |   | - |   | |   | |   | |   | |   | - |   | |   | - |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | - |   | - |   | - |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
| ExUns: | 21c | ^ | 22 | ^ | 23a | · | 23b | ^ | 24a | · | 24b | ^ | 25 | ^ | 26 | ^ | 27 | ^ | 28a | · | 28b | ^ | 29 | ^ | 30 | ^ | 31a | · | 31b | ^ | 32 | |
| SP1: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for KDM4B
2 Ensembl transcripts including schematic representations: ENST00000381759
ENST00000159111
|
Expression for KDM4B
(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
| KDM4B expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for KDM4B
1 / 2 13 probe-sets matching KDM4B gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: AACGCTGCGA
SOURCE GeneReport for Unigene cluster: Hs.654816
|
Orthologs for KDM4B
(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 KDM4B gene from 5/9 species (see all 9
)
About this table Species with no ortholog for KDM4B
ENSEMBL Gene Tree for KDM4B | Paralogs for KDM4B(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for KDM4B gene
- KDM4D2 KDM4A2 JARID22 KDM4C2
|
SNPs/Variants for KDM4B(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 KDM4B (up to first 250kb)
|
Disorders & Mutations for KDM4B
(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: 609765
|
Medical News for KDM4B(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for KDM4B (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
| 10/17 PubMed articles for KDM4B gene (see all 17
):- Prediction of the coding sequences of unidentified human genes. XII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10048485)2, 3, 4 Nagase T....Ohara O. (1998)
- Identification and characterization of JMJD2 family genes in silico. (PubMed id 15138608)1, 2, 3 Katoh M. and Katoh M. (2004)
- Functional characterization of JMJD2A, a histone deacetylase- and retinoblastoma-binding protein. (PubMed id 15927959)1, 3, 4 Gray S.G.... Dangond F. (2005)
- Reversal of histone lysine trimethylation by the JMJD2 family of histone demethylases. (PubMed id 16603238)3, 4 Whetstine J.R.... Shi Y. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)3, 4 Gerhard D.S....Malek J. (2004)
- Large-scale characterization of HeLa cell nuclear phosphoproteins. (PubMed id 15302935)3, 4 Beausoleil S.A....Gygi S.P. (2004)
- The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)3, 4 Grimwood J.... Lucas S.M. (2004)
- Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)3, 4 Nakajima D.... Nagase T. (2002)
- Comparative integromics on JMJD2A, JMJD2B and JMJD2C: preferential expression of JMJD2C in undifferentiated ES cells. (PubMed id 17611647)1, 3 Katoh Y. and Katoh M. (2007)
- Regulation of Jumonji-domain-containing histone demethylases by hypoxia-inducible factor (HIF)-1alpha. (PubMed id 18713068)3 Pollard P.J....Ratcliffe P.J. (2008)
|
Search for KDM4B
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing KDM4B
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing KDM4B
(According to HUGE)
About This Section
| |
Specialized Databases showing KDM4B(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 KDM4B(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 KDM4B:

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| Antibodies & Assays for KDM4B  (JMJD2B) |
| | | | Search Tocris compounds for KDM4B |
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Incremental update: 13 Oct 2009
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