Kdm2 Lysine demethylase 2 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Kdm2provided by FlyBase
Official Full Name: Lysine demethylase 2provided by FlyBase
Primary source: FLYBASE:FBgn0037659
Locus tag: Dmel_CG11033
See related: AllianceGenome:FB:FBgn0037659
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: CG11033; dkdm2; dKdm2; dKDM2; Dmel\CG11033; dRAF1; FBXL19; JHDM1; kdm2; KDM2
Summary: Enables histone H3K4me/H3K4me2/H3K4me3 demethylase activity. Involved in larval somatic muscle development and segment specification. Located in nucleus. Part of PcG protein complex. Is expressed in several structures, including adult pars intercerebralis; embryonic/larval epidermis; embryonic/larval salivary gland; gut section; and peritracheal cell. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma. Orthologous to several human genes including KDM2B (lysine demethylase 2B). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 85C3-85C4; 3-48 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	3R	NT_033777.3 (9052495..9063245)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	3R	NT_033777.2 (4878217..4888967)

Chromosome 3R - NT_033777.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

genetic, molecular and biochemical analyses suggest that dKDM2 is not required for viability of flies, indicating that dKdm2 is likely redundant with other histone lysine demethylases in regulating normal development
Title: A developmental genetic analysis of the lysine demethylase KDM2 mutations in Drosophila melanogaster.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone H3K36 demethylase activity	ISS Inferred from Sequence or Structural Similarity more info
enables histone H3K4me/H3K4me2/H3K4me3 demethylase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone demethylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	ISM Inferred from Sequence Model more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in larval somatic muscle development	IEP Inferred from Expression Pattern more info	PubMed
involved_in larval somatic muscle development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in segment specification	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of PcG protein complex	IPI Inferred from Physical Interaction more info	PubMed
part_of SCF ubiquitin ligase complex	ISM Inferred from Sequence Model more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: lysine demethylase 2

Names: CG11033-PB; CG11033-PC; CG11033-PD; CG11033-PE; JmjC domain-containing histone demethylase 1; Kdm2-PB; Kdm2-PC; Kdm2-PD; Kdm2-PE; dRING-associated factor 1; lysine (K)-specific demethylase 2

NP_001262400.1

EC 1.14.11.67

NP_001262401.1

EC 1.14.11.67

NP_001262402.1

EC 1.14.11.67

NP_649864.2

EC 1.14.11.67

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NT_033777.3 Reference assembly

Range

9052495..9063245

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_141607.3 → NP_649864.2 lysine demethylase 2, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_649864.2

Status: REVIEWED

UniProtKB/Swiss-Prot

Q7YU79, Q9VHH9

UniProtKB/TrEMBL

A0A0B4KFJ7, V5P0A0

Conserved Domains (7) summary

cd09293
Location:1166 → 1320

AMN1; Antagonist of mitotic exit network protein 1

pfam02008
Location:670 → 716

zf-CXXC; CXXC zinc finger domain

sd00034
Location:1126 → 1149

LRR_AMN1; leucine-rich repeat [structural motif]

pfam12937
Location:1073 → 1108

F-box-like; F-box-like

pfam16866
Location:721 → 801

PHD_4; PHD-finger

cl00309
Location:394 → 467

PRTases_typeI; Phosphoribosyl transferase (PRT)-type I domain

cl21464
Location:231 → 331

cupin_like; Conserved domain found in cupin and related proteins
NM_001275471.1 → NP_001262400.1 lysine demethylase 2, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001262400.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q7YU79, Q9VHH9

UniProtKB/TrEMBL

A0A0B4KFJ7, V5P0A0

Conserved Domains (7) summary

cd09293
Location:1166 → 1320

AMN1; Antagonist of mitotic exit network protein 1

pfam02008
Location:670 → 716

zf-CXXC; CXXC zinc finger domain

sd00034
Location:1126 → 1149

LRR_AMN1; leucine-rich repeat [structural motif]

pfam12937
Location:1073 → 1108

F-box-like; F-box-like

pfam16866
Location:721 → 801

PHD_4; PHD-finger

cl00309
Location:394 → 467

PRTases_typeI; Phosphoribosyl transferase (PRT)-type I domain

cl21464
Location:231 → 331

cupin_like; Conserved domain found in cupin and related proteins
NM_001275473.1 → NP_001262402.1 lysine demethylase 2, isoform E [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001262402.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q7YU79, Q9VHH9

UniProtKB/TrEMBL

A0A0B4KFJ7, V5P0A0

Conserved Domains (7) summary

cd09293
Location:1166 → 1320

AMN1; Antagonist of mitotic exit network protein 1

pfam02008
Location:670 → 716

zf-CXXC; CXXC zinc finger domain

sd00034
Location:1126 → 1149

LRR_AMN1; leucine-rich repeat [structural motif]

pfam12937
Location:1073 → 1108

F-box-like; F-box-like

pfam16866
Location:721 → 801

PHD_4; PHD-finger

cl00309
Location:394 → 467

PRTases_typeI; Phosphoribosyl transferase (PRT)-type I domain

cl21464
Location:231 → 331

cupin_like; Conserved domain found in cupin and related proteins
NM_001275472.1 → NP_001262401.1 lysine demethylase 2, isoform D [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001262401.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q7YU79, Q9VHH9

UniProtKB/TrEMBL

A0A0B4KFJ7, V5P0A0

Conserved Domains (7) summary

cd09293
Location:1166 → 1320

AMN1; Antagonist of mitotic exit network protein 1

pfam02008
Location:670 → 716

zf-CXXC; CXXC zinc finger domain

sd00034
Location:1126 → 1149

LRR_AMN1; leucine-rich repeat [structural motif]

pfam12937
Location:1073 → 1108

F-box-like; F-box-like

pfam16866
Location:721 → 801

PHD_4; PHD-finger

cl00309
Location:394 → 467

PRTases_typeI; Phosphoribosyl transferase (PRT)-type I domain

cl21464
Location:231 → 331

cupin_like; Conserved domain found in cupin and related proteins