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Protein

High mobility group protein B3

Gene

HMGB3

Organism
Gallus gallus (Chicken)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript 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). Binds to the delta-1 crystallin/ASL1 enhancer (PubMed:7904558). Proposed to be involved in the innate immune response to nucleic acids by acting as a cytoplasmic promiscuous immunogenic DNA/RNA sensor (By similarity).By similarity1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi9 – 7971HMG box 1PROSITE-ProRule annotationAdd
BLAST
DNA bindingi93 – 16169HMG box 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • DNA binding, bending Source: AgBase
  • four-way junction DNA binding Source: AgBase
  • poly(A) RNA binding Source: Ensembl

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Immunity, Innate immunity, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

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
OrganismiGallus gallus (Chicken)
Taxonomic identifieri9031 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiArchelosauriaArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalloanseraeGalliformesPhasianidaePhasianinaeGallus
Proteomesi
  • UP000000539 Componenti: Unplaced

Subcellular locationi

  • Nucleus 1 Publication
  • Chromosome Curated
  • Cytoplasm By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 202201High mobility group protein B3PRO_0000048541Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi23 ↔ 45In disulfide HMGB3By similarity
Modified residuei23 – 231Cysteine derivative; cysteine sulfonic acid (-SO(3)H) in sulfonyl HMGB3; alternateBy similarity
Modified residuei45 – 451Cysteine derivative; cysteine sulfonic acid (-SO(3)H) in sulfonyl HMGB3; alternateBy similarity
Modified residuei104 – 1041Cysteine derivative; cysteine sulfonic acid (-SO(3)H) in sulfonyl HMGB3; alternateBy similarity

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

Disulfide bond

Proteomic databases

PRIDEiP40618.

Expressioni

Developmental stagei

Found in newly hatched chick liver and decreases during postnatal development.

Gene expression databases

BgeeiENSGALG00000009071.

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi182 – 20221Asp/Glu-rich (acidic)Add
BLAST

Sequence similaritiesi

Belongs to the HMGB family.Curated
Contains 2 HMG box DNA-binding domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

HOVERGENiHBG009000.
InParanoidiP40618.
KOiK11296.
OrthoDBiEOG091G0P81.
TreeFamiTF105371.

Family and domain databases

Gene3Di1.10.30.10. 2 hits.
InterProiIPR009071. HMG_box_dom.
IPR017967. HMG_boxA_CS.
IPR031077. HMGB3.
[Graphical view]
PANTHERiPTHR13711:SF144. PTHR13711:SF144. 1 hit.
PfamiPF00505. HMG_box. 1 hit.
PF09011. HMG_box_2. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 2 hits.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 2 hits.
PROSITEiPS00353. HMG_BOX_1. 1 hit.
PS50118. HMG_BOX_2. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P40618-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKGDPKKPK GKMSAYAFFV QTCREEHKKK NPEVPVNFAE FSKKCSERWK
60 70 80 90 100
TMSSKEKAKF DEMAKADKVR YDREMKDYGP AKGGKKKKDP NAPKRPPSGF
110 120 130 140 150
FLFCSEFRPK IKSTNPGISI GDVAKKLGEM WNNLSDGEKQ PYNNKAAKLK
160 170 180 190 200
EKYEKDVADY KSKGKFDGAK GAATKAARKK VEEEDEEEEE DEEEEDEDDD

DE
Length:202
Mass (Da):23,057
Last modified:September 18, 2013 - v3
Checksum:i24222C692BC5C903
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti30 – 301Missing in BAA03260 (PubMed:7904558).Curated
Sequence conflicti99 – 991G → A in CAA45065 (PubMed:1562600).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X63463 mRNA. Translation: CAA45065.1.
AADN03004033 Genomic DNA. No translation available.
AADN03004127 Genomic DNA. No translation available.
D14314 mRNA. Translation: BAA03260.1.
PIRiS22359.
RefSeqiNP_990626.2. NM_205295.1.
UniGeneiGga.4513.

Genome annotation databases

GeneIDi396232.
KEGGigga:396232.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X63463 mRNA. Translation: CAA45065.1.
AADN03004033 Genomic DNA. No translation available.
AADN03004127 Genomic DNA. No translation available.
D14314 mRNA. Translation: BAA03260.1.
PIRiS22359.
RefSeqiNP_990626.2. NM_205295.1.
UniGeneiGga.4513.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiP40618.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi396232.
KEGGigga:396232.

Organism-specific databases

CTDi3149.

Phylogenomic databases

HOVERGENiHBG009000.
InParanoidiP40618.
KOiK11296.
OrthoDBiEOG091G0P81.
TreeFamiTF105371.

Miscellaneous databases

PROiP40618.

Gene expression databases

BgeeiENSGALG00000009071.

Family and domain databases

Gene3Di1.10.30.10. 2 hits.
InterProiIPR009071. HMG_box_dom.
IPR017967. HMG_boxA_CS.
IPR031077. HMGB3.
[Graphical view]
PANTHERiPTHR13711:SF144. PTHR13711:SF144. 1 hit.
PfamiPF00505. HMG_box. 1 hit.
PF09011. HMG_box_2. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 2 hits.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 2 hits.
PROSITEiPS00353. HMG_BOX_1. 1 hit.
PS50118. HMG_BOX_2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiHMGB3_CHICK
AccessioniPrimary (citable) accession number: P40618
Secondary accession number(s): F1NGP8, P36194
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: September 18, 2013
Last modified: September 7, 2016
This is version 101 of the entry and version 3 of the sequence. [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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.