HmgD High mobility group protein D [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: HmgDprovided by FlyBase
Official Full Name: High mobility group protein Dprovided by FlyBase
Primary source: FLYBASE:FBgn0004362
Locus tag: Dmel_CG17950
See related: AllianceGenome:FB:FBgn0004362
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: anon-EST:Liang-1.9; CG17950; clone 1.9; dHMG-D; Dm-HMG-D100; Dmel\CG17950; HMG D; hmg-D; Hmg-D; HMG-D; HMG-D100; HMG1; hmgd; HMGD
Summary: Enables DNA binding activity, bending and minor groove of adenine-thymine-rich DNA binding activity. Involved in chromatin organization. Located in chromatin and nucleus. Is expressed in several structures, including adult head; central brain primordium; cuboidal/columnar epithelium; ganglia; and presumptive embryonic/larval system. Orthologous to human HMGB4 (high mobility group box 4). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 57F9-57F10; 2-96 cM

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2R	NT_033778.4 (21701458..21716727)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2R	NT_033778.3 (17588963..17604232)

Chromosome 2R - NT_033778.4 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?

MeCP2 behaves similarly to histone H1 and HMGD1 in creating a higher-order chromatin structure, which is susceptible to chromatin remodeling by ISWI.
Title: Comparative analysis of linker histone H1, MeCP2, and HMGD1 on nucleosome stability and target site accessibility.
HMG-D and ZmHMGB1 exist in dynamic assemblies in which the basic HMG boxes and linkers associate with their intrinsically disordered, predominantly acidic, tails in a manner analogous to that observed previously for HMGB1.
Title: Structural insights into the mechanism of negative regulation of single-box high mobility group proteins by the acidic tail domain.
This study provides new insights into the binding mechanisms used by HMG boxes to recognize varied DNA structures and sequences as well as modulate DNA structure and DNA bending.
Title: Structural analysis of HMGD-DNA complexes reveals influence of intercalation on sequence selectivity and DNA bending.
DNA binding is entropy driven with a substantial non-electrostatic contribution
Title: DNA binding of a non-sequence-specific HMG-D protein is entropy driven with a substantial non-electrostatic contribution.
A major function of the HMGD protein in Drosophila is to participate in Brahma-dependent chromatin remodeling at a specific subset of Brahma-dependent promoters.
Title: High mobility group proteins HMGD and HMGZ interact genetically with the Brahma chromatin remodeling complex in Drosophila.

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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	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding, bending	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding, bending	IDA Inferred from Direct Assay more info	PubMed
enables minor groove of adenine-thymine-rich DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in chromatin organization	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: high mobility group protein D

Names: CG17950-PA; CG17950-PB; CG17950-PC; CG17950-PD; HmgD-PA; HmgD-PB; HmgD-PC; HmgD-PD

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_033778.4 Reference assembly

Range

21701458..21716727

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001299767.1 → NP_001286696.1 high mobility group protein D, isoform D [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001286696.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q05783, Q540Z0, Q9W2D3

UniProtKB/TrEMBL

C0MJA0

Conserved Domains (1) summary

cd01390
Location:5 → 68

HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
NM_166479.2 → NP_726109.1 high mobility group protein D, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_726109.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q05783, Q540Z0, Q9W2D3

UniProtKB/TrEMBL

C0MJA0

Related

FBpp0071625

Conserved Domains (1) summary

cd01390
Location:5 → 68

HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
NM_001169773.2 → NP_001163244.1 high mobility group protein D, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001163244.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q05783, Q540Z0, Q9W2D3

UniProtKB/TrEMBL

C0MJA0

Conserved Domains (1) summary

cd01390
Location:5 → 68

HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...
NM_166480.2 → NP_726110.1 high mobility group protein D, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_726110.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q05783, Q540Z0, Q9W2D3

UniProtKB/TrEMBL

C0MJA0

Related

FBpp0071626

Conserved Domains (1) summary

cd01390
Location:5 → 68

HMGB-UBF_HMG-box; class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal ...