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Protein

High mobility group protein B3

Gene

Hmgb3

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

Functioni

Multifunctional protein with various roles in different cellular compartments. May act in a redox sensitive manner. Associates with chromatin and binds DNA with a preference to non-canonical DNA structures such as single-stranded DNA. Can bent DNA and enhance DNA flexibility by looping thus providing a mechanism to promote activities on various gene promoters (By similarity). Proposed to be involved in the innate immune response to nucleic acids by acting as a cytoplasmic promiscuous immunogenic DNA/RNA sensor (PubMed:19890330). Negatively regulates B-cell and myeloid cell differentiation. In hematopoietic stem cells may regulate the balance between self-renewal and differentiation. Involved in negative regulation of canonical Wnt signaling (PubMed:12714519, PubMed:15358624, PubMed:16945912).By similarity4 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi9 – 79HMG box 1PROSITE-ProRule annotationAdd BLAST71
DNA bindingi93 – 161HMG box 2PROSITE-ProRule annotationAdd BLAST69

GO - Molecular functioni

  • DNA binding Source: UniProtKB
  • DNA binding, bending Source: AgBase
  • four-way junction DNA binding Source: AgBase
  • RNA binding Source: UniProtKB
  • transcription factor binding Source: GO_Central

GO - Biological processi

Keywordsi

Molecular functionDNA-binding
Biological processImmunity, Innate immunity, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
High mobility group protein B3
Alternative name(s):
High mobility group protein 2a
Short name:
HMG-2a
High mobility group protein 4
Short name:
HMG-4
Gene namesi
Name:Hmgb3
Synonyms:Hmg2a, Hmg4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome X

Organism-specific databases

MGIiMGI:1098219 Hmgb3

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, Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000485401 – 200High mobility group protein B3Add BLAST200

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei3N6-acetyllysineBy similarity1
Disulfide bondi23 ↔ 45In disulfide HMGB3; alternateBy similarity
Modified residuei23Cysteine sulfonic acid (-SO3H); alternateBy similarity1
Modified residuei30N6-acetyllysineBy similarity1
Modified residuei43N6-acetyllysineBy similarity1
Modified residuei45Cysteine sulfonic acid (-SO3H); alternateBy similarity1
Modified residuei98PhosphoserineBy similarity1
Modified residuei104Cysteine sulfonic acid (-SO3H)By similarity1
Modified residuei112N6-acetyllysineBy similarity1
Modified residuei139N6-acetyllysineBy similarity1

Post-translational modificationi

Reduction/oxidation of cysteine residues Cys-23, Cys-45 and Cys-104 and a possible intramolecular disulfide bond involving Cys-23 and Cys-45 give rise to different redox forms with specific functional activities in various cellular compartments: 1- fully reduced HMGB3 (HMGB3C23hC45hC104h), 2- disulfide HMGB3 (HMGB3C23-C45C104h) and 3- sulfonyl HMGB3 (HMGB3C23soC45soC104so).By similarity

Keywords - PTMi

Acetylation, Disulfide bond, Oxidation, Phosphoprotein

Proteomic databases

EPDiO54879
PaxDbiO54879
PeptideAtlasiO54879
PRIDEiO54879

PTM databases

iPTMnetiO54879
PhosphoSitePlusiO54879

Expressioni

Tissue specificityi

Expressed in bone marrow cells, specifically in primitive Lin-, c-kit+, Sca-1+, IL-7Ralpha- cells, and Ter119+ erythroid cells (PubMed:12714519).1 Publication

Developmental stagei

Highly expressed in the embryo; barely detectable in the adult stage.

Gene expression databases

BgeeiENSMUSG00000015217 Expressed in 67 organ(s), highest expression level in head
CleanExiMM_HMGB3
ExpressionAtlasiO54879 baseline and differential
GenevisibleiO54879 MM

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

BioGridi200336, 1 interactor
IntActiO54879, 1 interactor
MINTiO54879
STRINGi10090.ENSMUSP00000015361

Structurei

3D structure databases

ProteinModelPortaliO54879
SMRiO54879
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi181 – 200Asp/Glu-rich (acidic)Add BLAST20

Sequence similaritiesi

Belongs to the HMGB family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0381 Eukaryota
COG5648 LUCA
GeneTreeiENSGT00760000119164
HOGENOMiHOG000197861
HOVERGENiHBG009000
InParanoidiO54879
KOiK11296
OMAiHTRKPRK
OrthoDBiEOG091G0P81
PhylomeDBiO54879
TreeFamiTF105371

Family and domain databases

Gene3Di1.10.30.10, 2 hits
InterProiView protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR017967 HMG_boxA_CS
IPR031077 HMGB3
PANTHERiPTHR13711:SF144 PTHR13711:SF144, 1 hit
PfamiView protein in Pfam
PF00505 HMG_box, 1 hit
PF09011 HMG_box_2, 1 hit
SMARTiView protein in SMART
SM00398 HMG, 2 hits
SUPFAMiSSF47095 SSF47095, 2 hits
PROSITEiView protein in PROSITE
PS00353 HMG_BOX_1, 1 hit
PS50118 HMG_BOX_2, 2 hits

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

O54879-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAKGDPKKPK GKMSAYAFFV QTCREEHKKK NPEVPVNFAE FSKKCSERWK
60 70 80 90 100
TMSSKEKSKF DEMAKADKVR YDREMKDYGP AKGGKKKKDP NAPKRPPSGF
110 120 130 140 150
FLFCSEFRPK IKSTNPGISI GDVAKKLGEM WNNLSDNEKQ PYVTKAAKLK
160 170 180 190 200
EKYEKDVADY KSKGKFDGAK GPAKVARKKV EEEEEEEEEE EEEEEEEEDE
Length:200
Mass (Da):23,010
Last modified:January 23, 2007 - v3
Checksum:i34A45470D4F1B1FB
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A2AP78A2AP78_MOUSE
High mobility group protein B3
Hmgb3
159Annotation score:

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF022465 mRNA Translation: AAC16925.1
BC011276 mRNA Translation: AAH11276.1
BC083352 mRNA Translation: AAH83352.1
CCDSiCCDS30180.1
RefSeqiNP_001280552.1, NM_001293623.1
NP_001280553.1, NM_001293624.1
NP_001280554.1, NM_001293625.1
NP_032279.1, NM_008253.4
XP_006527905.1, XM_006527842.3
UniGeneiMm.336087

Genome annotation databases

EnsembliENSMUST00000015361; ENSMUSP00000015361; ENSMUSG00000015217
ENSMUST00000072699; ENSMUSP00000110232; ENSMUSG00000015217
ENSMUST00000088874; ENSMUSP00000086260; ENSMUSG00000015217
ENSMUST00000114582; ENSMUSP00000110229; ENSMUSG00000015217
GeneIDi15354
KEGGimmu:15354
UCSCiuc009tkb.2 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF022465 mRNA Translation: AAC16925.1
BC011276 mRNA Translation: AAH11276.1
BC083352 mRNA Translation: AAH83352.1
CCDSiCCDS30180.1
RefSeqiNP_001280552.1, NM_001293623.1
NP_001280553.1, NM_001293624.1
NP_001280554.1, NM_001293625.1
NP_032279.1, NM_008253.4
XP_006527905.1, XM_006527842.3
UniGeneiMm.336087

3D structure databases

ProteinModelPortaliO54879
SMRiO54879
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi200336, 1 interactor
IntActiO54879, 1 interactor
MINTiO54879
STRINGi10090.ENSMUSP00000015361

PTM databases

iPTMnetiO54879
PhosphoSitePlusiO54879

Proteomic databases

EPDiO54879
PaxDbiO54879
PeptideAtlasiO54879
PRIDEiO54879

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000015361; ENSMUSP00000015361; ENSMUSG00000015217
ENSMUST00000072699; ENSMUSP00000110232; ENSMUSG00000015217
ENSMUST00000088874; ENSMUSP00000086260; ENSMUSG00000015217
ENSMUST00000114582; ENSMUSP00000110229; ENSMUSG00000015217
GeneIDi15354
KEGGimmu:15354
UCSCiuc009tkb.2 mouse

Organism-specific databases

CTDi3149
MGIiMGI:1098219 Hmgb3

Phylogenomic databases

eggNOGiKOG0381 Eukaryota
COG5648 LUCA
GeneTreeiENSGT00760000119164
HOGENOMiHOG000197861
HOVERGENiHBG009000
InParanoidiO54879
KOiK11296
OMAiHTRKPRK
OrthoDBiEOG091G0P81
PhylomeDBiO54879
TreeFamiTF105371

Miscellaneous databases

PROiPR:O54879
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000015217 Expressed in 67 organ(s), highest expression level in head
CleanExiMM_HMGB3
ExpressionAtlasiO54879 baseline and differential
GenevisibleiO54879 MM

Family and domain databases

Gene3Di1.10.30.10, 2 hits
InterProiView protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR017967 HMG_boxA_CS
IPR031077 HMGB3
PANTHERiPTHR13711:SF144 PTHR13711:SF144, 1 hit
PfamiView protein in Pfam
PF00505 HMG_box, 1 hit
PF09011 HMG_box_2, 1 hit
SMARTiView protein in SMART
SM00398 HMG, 2 hits
SUPFAMiSSF47095 SSF47095, 2 hits
PROSITEiView protein in PROSITE
PS00353 HMG_BOX_1, 1 hit
PS50118 HMG_BOX_2, 2 hits
ProtoNetiSearch...

Entry informationi

Entry nameiHMGB3_MOUSE
AccessioniPrimary (citable) accession number: O54879
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 27, 2002
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 148 of the entry and version 3 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
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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