HIST1H1D histone cluster 1, H1d [Homo sapiens] - Gene

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Summary

Official Symbol: HIST1H1Dprovided by HGNC
Official Full Name: histone cluster 1, H1dprovided by HGNC
Primary source: HGNC:4717
See related: Ensembl:ENSG00000124575; HPRD:06764; MIM:142210; Vega:OTTHUMG00000014432
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: H1D; H1.3; H1F3; H1s-2; MGC138176
Summary: Histones are basic nuclear proteins responsible for nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene is intronless and encodes a member of the histone H1 family. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6. [provided by RefSeq, Jul 2008]

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Genomic context

Location :: 6p21.3

Sequence :: Chromosome: 6; NC_000006.11 (26234440..26235216, complement)

See HIST1H1D in Epigenomics, MapViewer

Chromosome 6 - NC_000006.11 Genomic Context describing neighboring genes

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Genomic regions, transcripts, and products

Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

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Bibliography

GeneRIFs: Gene References Into Functions What's a GeneRIF?

overexpression of histone cluster 1 is associated with recurrence in meningiomas.
Title: Differential expression profiling analyses identifies downregulation of 1p, 6q, and 14q genes and overexpression of 6p histone cluster 1 genes as markers of recurrence in meningiomas.
Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
Title: Identification of 15 loci influencing height in a Korean population.
Observational study of gene-disease association. (HuGE Navigator)
Title: Association of linear growth impairment in pediatric Crohn's disease and a known height locus: a pilot study.
confirmed N-terminal acetylation on all isoforms plus a single internal acetylation site; phosphorylation sites were located on peptides containing the cyclin dependent kinase (CDK) consensus motif
Title: Characterization of phosphorylation sites on histone H1 isoforms by tandem mass spectrometry.

Submit: New GeneRIF Correction

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Phenotypes

Review eQTL and phenotype association data in this region using PheGenI

Identification of ten loci associated with height highlights new biological pathways in human growth.

Meta-analysis of genome-wide scans for human adult stature identifies novel Loci and associations with measures of skeletal frame size.

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Products	Interactant	Other Gene	Source	Pubs	Description
BioGRID:109262	BioGRID:107420	CDK1	BioGRID	PubMed	Biochemical Activity
BioGRID:109262	BioGRID:971788	EBNA-LP	BioGRID	PubMed	Affinity Capture-MS
BioGRID:109262	BioGRID:108347	EP300	BioGRID	PubMed	Biochemical Activity
BioGRID:109262	BioGRID:109318	HDGF	BioGRID	PubMed	Affinity Capture-MS
BioGRID:109262	BioGRID:119322	IRAK4	BioGRID	PubMed	Biochemical Activity
BioGRID:109262	BioGRID:115783	NOP56	BioGRID	PubMed	Affinity Capture-MS
BioGRID:109262	BioGRID:111564	PRKCA	BioGRID	PubMed	Biochemical Activity
BioGRID:109262	BioGRID:111822	RAD21	BioGRID	PubMed	Affinity Capture-Western
BioGRID:109262	BioGRID:113188	SUMO1	BioGRID	PubMed	Affinity Capture-MS; Reconstituted Complex
BioGRID:109262	BioGRID:113164	UBC	BioGRID	PubMed	Affinity Capture-MS
BioGRID:109262	BioGRID:116168	YWHAQ	BioGRID	PubMed	Affinity Capture-MS

Function	Evidence Code	Pubs
DNA binding	NAS Non-traceable Author Statement more info

Process	Evidence Code	Pubs
nucleosome assembly	NAS Non-traceable Author Statement more info
nucleosome positioning	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
chromosome	IEA Inferred from Electronic Annotation more info
nuclear chromatin	IDA Inferred from Direct Assay more info	PubMed
nucleosome	NAS Non-traceable Author Statement more info
nucleus	IEA Inferred from Electronic Annotation more info

General protein information

Preferred Names: histone H1.3

Names: histone H1.3; histone H1c; histone 1, H1d; H1 histone family, member 3

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NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_005320.2 → NP_005311.1 histone H1.3

Status: REVIEWED

Source sequence(s)

M60747

Consensus CDS

CCDS4597.1

UniProtKB/Swiss-Prot

P16402

Related

ENSP00000244534, OTTHUMP00000016148, ENST00000244534, OTTHUMT00000040095

Conserved Domains (1) summary

cd00073
Location:37 – 109
Blast Score: 154

H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...

RefSeqs of Annotated Genomes: Build 37.3

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

Reference GRCh37.p5 Primary Assembly

Genomic

NC_000006.11 Reference GRCh37.p5 Primary Assembly

Range

26234440..26235216, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate HuRef

Genomic

AC_000138.1 Alternate HuRef

Range

26177448..26178221, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

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Related Sequences

Nucleotide		Protein
Heading	Accession and Version	Protein
genomic	AF531303.1	AAN06703.1
genomic	AL031777.5	CAB39189.1
genomic	CH471087.1	EAW55548.1
genomic	M60747.1	AAA63186.1
mRNA	AK312845.1	BAG35698.1
mRNA	BC104874.1	AAI04875.1
mRNA	BC111971.1	AAI11972.1
other-genetic	EU446961.1	ABZ92490.1