Cell atlas - KDM5D - The Human Protein Atlas

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KDM5D

TISSUE

CELL

PATHOLOGY

CELL ATLAS RNA EXPRESSION HUMAN CELLS

GENE/PROTEIN

Antibody validation

Dictionary
	Nucleoli fibrillar center

Human cell
	Nucleoli

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GENERAL INFORMATION
Gene name	KDM5D
Gene description	Lysine (K)-specific demethylase 5D
Protein class	Plasma proteins Predicted intracellular proteins Transcription factors
Predicted localization	Intracellular
Number of transcripts	6
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HUMAN PROTEIN ATLAS INFORMATION
Summary	Localized to the nucleoli (fibrillar center).
RNA cell category	Cell line enhanced (HEL)
Protein evidence	Evidence at protein level
Main location	Localized to the Nucleoli fibrillar center (approved)

DATA RELIABILITY
Reliability score	Approved based on 1 antibody. HPA049086
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ASSAYS

RNA EXPRESSION OVERVIEW
RNA cell line category: Cell line enhanced (HEL) Organ Origin Category Expression Alphabetical Cell lines sorted after organ of phenotypic resemblance. Cell lines sorted after biological source for establishment. Cell lines sorted after the cell line category according to Cellosaurus. Cell lines sorted on descending RNA expression. Cell lines sorted alphabetically.

HUMAN CELLS

Summary

Localized to the nucleoli (fibrillar center).

Main location

Nucleoli fibrillar center (approved)


	Toggle channels	Low High G1 S G2 M N/A

Thumbnail	Antibody	Cell line	Location	Single-cell variation	Cell cycle dependent variation
	HPA049086	Hep G2	Nucleoli fibrillar center
	HPA049086	U-2 OS	Nucleoli fibrillar center
	HPA049086	U-251 MG	Nucleoli fibrillar center

GENE INFORMATION
Gene name	KDM5D (HGNC Symbol)
Synonyms	HY, HYA, JARID1D, KIAA0234, SMCY
Description	Lysine (K)-specific demethylase 5D (HGNC Symbol)
Entrez gene summary	This gene encodes a protein containing zinc finger domains. A short peptide derived from this protein is a minor histocompatibility antigen which can lead to graft rejection of male donor cells in a female recipient. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2009]
Chromosome	Y
Cytoband	q11.223
Chromosome location (bp)	19703865 - 19744939
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000012817 (version 83.38)
Entrez gene	8284
UniProt	Q9BY66 (UniProt - Evidence at protein level)
neXtProt	NX_Q9BY66
Antibodypedia	KDM5D antibodies

PROTEIN BROWSER

KDM5D-001	KDM5D-002	KDM5D-003	KDM5D-004	KDM5D-009	KDM5D-201

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
KDM5D-001 ENSP00000322408 ENST00000317961	Q9BY66 [Direct mapping] Lysine-specific demethylase 5D Show all	THUMBUP predicted membrane proteins Predicted intracellular proteins Plasma proteins Transcription factors Helix-turn-helix domains Protein evidence (Kim et al 2014) Show all	GO:0002457 [T cell antigen processing and presentation] GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0005575 [cellular_component] GO:0005654 [nucleoplasm] GO:0006325 [chromatin organization] GO:0008270 [zinc ion binding] GO:0016706 [oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors] GO:0032453 [histone demethylase activity (H3-K4 specific)] GO:0034720 [histone H3-K4 demethylation] GO:0055114 [oxidation-reduction process] Show all	1539 aa 174.1 kDa	No	0
KDM5D-002 ENSP00000372256 ENST00000382806	Q9BY66 [Direct mapping] Lysine-specific demethylase 5D Show all	THUMBUP predicted membrane proteins Predicted intracellular proteins Plasma proteins Transcription factors Helix-turn-helix domains Protein evidence (Kim et al 2014) Show all	GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0005575 [cellular_component] GO:0005654 [nucleoplasm] GO:0006325 [chromatin organization] GO:0008270 [zinc ion binding] GO:0016706 [oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors] GO:0032453 [histone demethylase activity (H3-K4 specific)] GO:0034720 [histone H3-K4 demethylation] GO:0055114 [oxidation-reduction process] Show all	1482 aa 167.4 kDa	No	0
KDM5D-003 ENSP00000416377 ENST00000447300	C9JGA3 [Direct mapping] Lysine-specific demethylase 5D Show all	Predicted intracellular proteins Show all	GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0008270 [zinc ion binding] Show all	425 aa 48.5 kDa	No	0
KDM5D-004 ENSP00000398543 ENST00000440077	E9PFH2 [Direct mapping] Lysine-specific demethylase 5D Show all	THUMBUP predicted membrane proteins Predicted intracellular proteins Show all	GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0008270 [zinc ion binding] GO:0016706 [oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors] GO:0055114 [oxidation-reduction process] Show all	1476 aa 166.9 kDa	No	0
KDM5D-009 ENSP00000389433 ENST00000415360	H7BZF9 [Direct mapping] Lysine-specific demethylase 5D Show all	Predicted intracellular proteins Show all	GO:0005515 [protein binding] GO:0008270 [zinc ion binding] GO:0016706 [oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors] GO:0055114 [oxidation-reduction process] Show all	293 aa 32.2 kDa	No	0
KDM5D-201 ENSP00000444293 ENST00000541639	Q9BY66 [Direct mapping] Lysine-specific demethylase 5D Show all	SCAMPI predicted membrane proteins THUMBUP predicted membrane proteins Predicted intracellular proteins Plasma proteins Transcription factors Helix-turn-helix domains Protein evidence (Kim et al 2014) Show all	GO:0003677 [DNA binding] GO:0005515 [protein binding] GO:0005575 [cellular_component] GO:0005654 [nucleoplasm] GO:0006325 [chromatin organization] GO:0008270 [zinc ion binding] GO:0016706 [oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors] GO:0032453 [histone demethylase activity (H3-K4 specific)] GO:0034720 [histone H3-K4 demethylation] GO:0055114 [oxidation-reduction process] Show all	1570 aa 177.6 kDa	No	0

Contact

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The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg foundation.