protein coding gene - jmj3 (SPBC83.07) - histone demethylase H3-K36 specific, Lid2 complex subunit Jmj3

Gene summary

Standard name: jmj3
Systematic ID: SPBC83.07
Product: histone demethylase H3-K36 specific, Lid2 complex subunit Jmj3
Organism: Schizosaccharomyces pombe (fission yeast)
Synonyms: kdm4
UniProt ID: O94691
ORFeome ID: 28/28C08
Characterisation status: biological role published
Feature type: mRNA gene
Genomic location: chromosome II: 1521197..1523695 forward strand

Annotation

Disease association

MONDO:0030995 - global developmental delay with speech and behavioral abnormalities

References:

PB_REF:0000003

MONDO:0023657 - intellectual developmental disorder, autosomal dominant 65

References:

PB_REF:0000006

GO biological process

GO:0006338 - chromatin remodeling

References:

GO_REF:0000033

GO:0010468 - regulation of gene expression

References:

GO_REF:0000033

GO cellular component

GO:0000785 - chromatin

References:

GO_REF:0000033

GO:0005829 - cytosol

References:

PMID:16823372

GO:0048189 - Lid2 complex

References:

PMID:12488447

GO:0005634 - nucleus

References:

PMID:16823372

GO molecular function

GO:0051864 - histone H3K36 demethylase activity

References:

GO_REF:0000033

GO:0032454 - histone H3K9 demethylase activity

References:

GO_REF:0000033

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

References:

MOD:00696 - phosphorylated residue

References:

PMID:19547744

Protein features

PBO:0111833 - jmjC domain

PBO:0111743 - zinc finger protein

Quantitative gene expression

PBO:0006310 - protein level

References:

PMID:23101633

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

PMID:32101745

Genotypes:

jmj3::Tn-seq

FYPO:0002170 - inviable after spore germination, multiple cell divisions, branched, elongated cell

References:

PMID:23697806

Genotypes:

jmj3delta

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

jmj3delta

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

Protein features

ID	Name	InterPro name	DB name
PF02375	JmjN	JmjN	PFAM
PF02373	JmjC	JmjC_dom	PFAM
PS51183	JMJN	JmjN	PROSITE_PROFILES
PS51184	JMJC	JmjC_dom	PROSITE_PROFILES
SM00558	cupin_9	JmjC_dom	SMART
SM00545	JmjN_1	JmjN	SMART
SSF51197	Clavaminate synthase-like		SUPERFAMILY
G3DSA:2.60.120.650	Cupin		GENE3D
PTHR10694	LYSINE-SPECIFIC DEMETHYLASE		PANTHER
mobidb-lite-Disorder	disorder_prediction		MOBIDB-Disorder
mobidb-lite-Polar	disorder_prediction		MOBIDB-Polar
mobidb-lite-Polyampholyte	disorder_prediction		MOBIDB-Polyampholyte

Orthologs

KDM4C (HGNC:17071) Homo sapiens
KDM4A (HGNC:22978) Homo sapiens
KDM4D (HGNC:25498) Homo sapiens
KDM4B (HGNC:29136) Homo sapiens
jmj3 (SJAG_03041) Schizosaccharomyces japonicus
GIS1 (YDR096W) Saccharomyces cerevisiae
RPH1 (YER169W) Saccharomyces cerevisiae

References / Literature

PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.: Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:12488447 - High conservation of the Set1/Rad6 axis of histone 3 lysine 4 methylation in budding and fission yeasts.: Roguev A et al. J Biol Chem 2003 Mar 07;278(10):8487-93
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.: Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.: Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:14617822 - A comparative analysis of an orthologous proteomic environment in the yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe.: Roguev A et al. Mol Cell Proteomics 2004 Feb;3(2):125-32
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PB_REF:0000003 - Disease Association Curation
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.: Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.: Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.: Hayles J et al. Open Biol 2013 May 22;3(5):130053
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.: Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.: Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.: Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PMID:30824696 - Systematic analysis reveals the prevalence and principles of bypassable gene essentiality.: Li J et al. Nat Commun 2019 Mar 01;10(1):1002
PMID:32101745 - Dense Transposon Integration Reveals Essential Cleavage and Polyadenylation Factors Promote Heterochromatin Formation.: Lee SY et al. Cell Rep 2020 Feb 25;30(8):2686-2698.e8