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Protein

Histone H1.3

Gene

Hist1h1d

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Histone H1 protein binds to linker DNA between nucleosomes forming the macromolecular structure known as the chromatin fiber. Histones H1 are necessary for the condensation of nucleosome chains into higher-order structured fibers. Acts also as a regulator of individual gene transcription through chromatin remodeling, nucleosome spacing and DNA methylation (By similarity).By similarity1 Publication

GO - Molecular functioni

  • chromatin DNA binding Source: MGI
  • DNA binding Source: MGI

GO - Biological processi

  • histone H3-K27 trimethylation Source: MGI
  • histone H3-K4 trimethylation Source: MGI
  • negative regulation of transcription by RNA polymerase II Source: MGI
  • nucleosome assembly Source: InterPro
  • nucleosome positioning Source: MGI
  • regulation of transcription by RNA polymerase II Source: MGI

Keywordsi

Molecular functionDNA-binding

Enzyme and pathway databases

ReactomeiR-MMU-211227 Activation of DNA fragmentation factor
R-MMU-2559584 Formation of Senescence-Associated Heterochromatin Foci (SAHF)

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H1.3
Alternative name(s):
H1 VAR.4
H1d
Gene namesi
Name:Hist1h1d
Synonyms:H1f3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 13

Organism-specific databases

MGIiMGI:107502 Hist1h1d

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleus

Pathology & Biotechi

Disruption phenotypei

No visible phenotype. Triple-deficient mice (Hist1h1c, Hist1h1d and Hist1h1e) die by midgestation with a broad range of defects. These embryos have about 50% of the normal ratio of H1 to nucleosomes, demonstrating that critical levels of total H1 histones are essential for mouse embryogenesis.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00001959162 – 221Histone H1.3Add BLAST220

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineCombined sources1
Modified residuei2PhosphoserineBy similarity1
Modified residuei17N6-acetyllysineCombined sources1
Modified residuei18PhosphothreonineCombined sources1
Modified residuei33N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei35N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei53N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei55Citrulline1 Publication1
Modified residuei65N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei86N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei91N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei105Phosphoserine; by PKCBy similarity1
Modified residuei107N6-(beta-hydroxybutyryl)lysine1 Publication1
Modified residuei141N6-(beta-hydroxybutyryl)lysine1 Publication1

Post-translational modificationi

H1 histones are progressively phosphorylated during the cell cycle, becoming maximally phosphorylated during late G2 phase and M phase, and being dephosphorylated sharply thereafter.By similarity
Hydroxybutyrylation of histones is induced by starvation.1 Publication
Citrullination at Arg-55 (H1R54ci) by PADI4 takes place within the DNA-binding site of H1 and results in its displacement from chromatin and global chromatin decondensation, thereby promoting pluripotency and stem cell maintenance.1 Publication

Keywords - PTMi

Acetylation, Citrullination, Hydroxylation, Phosphoprotein

Proteomic databases

EPDiP43277
PaxDbiP43277
PeptideAtlasiP43277
PRIDEiP43277
TopDownProteomicsiP43277

PTM databases

iPTMnetiP43277
PhosphoSitePlusiP43277

Expressioni

Gene expression databases

BgeeiENSMUSG00000052565 Expressed in 27 organ(s), highest expression level in bone marrow
CleanExiMM_HIST1H1D
ExpressionAtlasiP43277 baseline and differential

Interactioni

Protein-protein interaction databases

BioGridi200144, 1 interactor
IntActiP43277, 6 interactors
MINTiP43277
STRINGi10090.ENSMUSP00000044395

Structurei

3D structure databases

ProteinModelPortaliP43277
SMRiP43277
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini37 – 110H15PROSITE-ProRule annotationAdd BLAST74

Domaini

The C-terminal domain is required for high-affinity binding to chromatin.By similarity

Sequence similaritiesi

Belongs to the histone H1/H5 family.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG4012 Eukaryota
ENOG4112541 LUCA
GeneTreeiENSGT00670000097781
HOGENOMiHOG000251627
HOVERGENiHBG009035
InParanoidiP43277
KOiK11275
OMAiTHGPRER
OrthoDBiEOG091G0XGD
TreeFamiTF313664

Family and domain databases

CDDicd00073 H15, 1 hit
Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR005818 Histone_H1/H5_H15
IPR005819 Histone_H5
IPR036388 WH-like_DNA-bd_sf
IPR036390 WH_DNA-bd_sf
PfamiView protein in Pfam
PF00538 Linker_histone, 1 hit
PRINTSiPR00624 HISTONEH5
SMARTiView protein in SMART
SM00526 H15, 1 hit
SUPFAMiSSF46785 SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS51504 H15, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P43277-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSETAPAAPA APAPVEKTPV KKKAKKTGAA AGKRKASGPP VSELITKAVA
60 70 80 90 100
ASKERSGVSL AALKKALAAA GYDVEKNNSR IKLGLKSLVS KGTLVQTKGT
110 120 130 140 150
GASGSFKLNK KAASGEAKPK AKKAGAAKAK KPAGAAKKPK KATGAATPKK
160 170 180 190 200
TAKKTPKKAK KPAAAAGAKK VSKSPKKVKA AKPKKAAKSP AKAKAPKAKA
210 220
SKPKASKPKA TKAKKAAPRK K
Length:221
Mass (Da):22,100
Last modified:January 23, 2007 - v2
Checksum:i19D888981281E55C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti57G → C in BAC35711 (PubMed:16141072).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z38128 Genomic DNA Translation: CAA86288.1
U62923 Genomic DNA Translation: AAB05799.1
AY158906 Genomic DNA Translation: AAO06217.1
AK054269 mRNA Translation: BAC35711.1
CCDSiCCDS26346.1
PIRiB35245
S49482
RefSeqiNP_663759.3, NM_145713.4
UniGeneiMm.247046

Genome annotation databases

EnsembliENSMUST00000045301; ENSMUSP00000044395; ENSMUSG00000052565
GeneIDi14957
KEGGimmu:14957
UCSCiuc007pub.3 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z38128 Genomic DNA Translation: CAA86288.1
U62923 Genomic DNA Translation: AAB05799.1
AY158906 Genomic DNA Translation: AAO06217.1
AK054269 mRNA Translation: BAC35711.1
CCDSiCCDS26346.1
PIRiB35245
S49482
RefSeqiNP_663759.3, NM_145713.4
UniGeneiMm.247046

3D structure databases

ProteinModelPortaliP43277
SMRiP43277
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi200144, 1 interactor
IntActiP43277, 6 interactors
MINTiP43277
STRINGi10090.ENSMUSP00000044395

PTM databases

iPTMnetiP43277
PhosphoSitePlusiP43277

Proteomic databases

EPDiP43277
PaxDbiP43277
PeptideAtlasiP43277
PRIDEiP43277
TopDownProteomicsiP43277

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000045301; ENSMUSP00000044395; ENSMUSG00000052565
GeneIDi14957
KEGGimmu:14957
UCSCiuc007pub.3 mouse

Organism-specific databases

CTDi3007
MGIiMGI:107502 Hist1h1d

Phylogenomic databases

eggNOGiKOG4012 Eukaryota
ENOG4112541 LUCA
GeneTreeiENSGT00670000097781
HOGENOMiHOG000251627
HOVERGENiHBG009035
InParanoidiP43277
KOiK11275
OMAiTHGPRER
OrthoDBiEOG091G0XGD
TreeFamiTF313664

Enzyme and pathway databases

ReactomeiR-MMU-211227 Activation of DNA fragmentation factor
R-MMU-2559584 Formation of Senescence-Associated Heterochromatin Foci (SAHF)

Miscellaneous databases

PROiPR:P43277
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000052565 Expressed in 27 organ(s), highest expression level in bone marrow
CleanExiMM_HIST1H1D
ExpressionAtlasiP43277 baseline and differential

Family and domain databases

CDDicd00073 H15, 1 hit
Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR005818 Histone_H1/H5_H15
IPR005819 Histone_H5
IPR036388 WH-like_DNA-bd_sf
IPR036390 WH_DNA-bd_sf
PfamiView protein in Pfam
PF00538 Linker_histone, 1 hit
PRINTSiPR00624 HISTONEH5
SMARTiView protein in SMART
SM00526 H15, 1 hit
SUPFAMiSSF46785 SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS51504 H15, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiH13_MOUSE
AccessioniPrimary (citable) accession number: P43277
Secondary accession number(s): Q8C6M4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: January 23, 2007
Last modified: September 12, 2018
This is version 147 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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Main funding by: National Institutes of Health

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