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Protein

High mobility group B protein 1

Gene

HMGB1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds preferentially double-stranded DNA. Modulates general plant growth and stress tolerance. Confers sensitivity to salt and genotoxic (methyl methanesulfonate, MMS) stresses.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi53 – 12270HMG boxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • chromatin binding Source: TAIR
  • DNA binding Source: TAIR
  • structural constituent of chromatin Source: TAIR
  • transcription factor activity, sequence-specific DNA binding Source: TAIR

GO - Biological processi

  • chromatin assembly or disassembly Source: TAIR
Complete GO annotation...

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
High mobility group B protein 1
Alternative name(s):
High mobility group protein A
Short name:
AtHMGalpha
Short name:
HMG alpha
Nucleosome/chromatin assembly factor group D 01
Short name:
Nucleosome/chromatin assembly factor group D 1
Gene namesi
Name:HMGB1
Synonyms:HMGA, HMGALPHA, NFD01, NFD1, ORF13
Ordered Locus Names:At3g51880
ORF Names:ATEM1.13
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G51880.

Subcellular locationi

GO - Cellular componenti

  • chromatin Source: TAIR
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Slightly delayed and reduced germination rate. Reduced root length. Enhanced sensitivity to methyl methanesulfonate (MMS).1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 178178High mobility group B protein 1PRO_0000399927Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei137 – 1371PhosphoserineCombined sources
Modified residuei146 – 1461PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiO49595.
PRIDEiO49595.

PTM databases

iPTMnetiO49595.

Expressioni

Tissue specificityi

Expressed in cotyledons, roots, stems, leaves and flowers (excluding pedicels).3 Publications

Inductioni

Down-regulated by salt stress.1 Publication

Gene expression databases

ExpressionAtlasiO49595. baseline and differential.
GenevisibleiO49595. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT3G51880.2.

Structurei

3D structure databases

ProteinModelPortaliO49595.
SMRiO49595. Positions 47-121.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi99 – 17779Glu-richAdd
BLAST

Sequence similaritiesi

Belongs to the HMGB family.Curated
Contains 1 HMG box DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0381. Eukaryota.
COG5648. LUCA.
HOGENOMiHOG000197860.
InParanoidiO49595.
KOiK10802.
OMAiEDFRTTF.
PhylomeDBiO49595.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O49595-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MKTAKGKDKV KTTKEALKPV DDRKVGKRKA PAEKPTKRET RKEKKAKKDP
60 70 80 90 100
NKPKRAPSAF FVFLEDFRVT FKKENPNVKA VSAVGKAGGQ KWKSMSQAEK
110 120 130 140 150
APYEEKAAKR KAEYEKQMDA YNKNLEEGSD ESEKSRSEIN DEDEASGEEE
160 170
LLEKEAAGDD EEEEEEEDDD DDDDEEED
Length:178
Mass (Da):20,265
Last modified:June 1, 1998 - v1
Checksum:i2C1130786210828B
GO
Isoform 2 (identifier: O49595-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     148-148: E → EVTIPLSN

Note: No experimental confirmation available.
Show »
Length:185
Mass (Da):20,990
Checksum:i8EF5428E8386E868
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei148 – 1481E → EVTIPLSN in isoform 2. 1 PublicationVSP_039939

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14071 mRNA. Translation: CAA74400.1.
AF049236 Genomic DNA. Translation: AAC14415.1.
CP002686 Genomic DNA. Translation: AEE78855.1.
CP002686 Genomic DNA. Translation: AEE78856.1.
CP002686 Genomic DNA. Translation: AEE78857.1.
AY056373 mRNA. Translation: AAL08229.1.
AY113172 mRNA. Translation: AAM47475.1.
AK316819 mRNA. Translation: BAH19531.1.
PIRiT51159.
RefSeqiNP_001078269.1. NM_001084800.1. [O49595-1]
NP_190756.1. NM_115047.2. [O49595-1]
NP_974413.1. NM_202684.2. [O49595-2]
UniGeneiAt.27677.
At.480.

Genome annotation databases

EnsemblPlantsiAT3G51880.1; AT3G51880.1; AT3G51880. [O49595-1]
AT3G51880.3; AT3G51880.3; AT3G51880. [O49595-1]
GeneIDi824351.
KEGGiath:AT3G51880.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y14071 mRNA. Translation: CAA74400.1.
AF049236 Genomic DNA. Translation: AAC14415.1.
CP002686 Genomic DNA. Translation: AEE78855.1.
CP002686 Genomic DNA. Translation: AEE78856.1.
CP002686 Genomic DNA. Translation: AEE78857.1.
AY056373 mRNA. Translation: AAL08229.1.
AY113172 mRNA. Translation: AAM47475.1.
AK316819 mRNA. Translation: BAH19531.1.
PIRiT51159.
RefSeqiNP_001078269.1. NM_001084800.1. [O49595-1]
NP_190756.1. NM_115047.2. [O49595-1]
NP_974413.1. NM_202684.2. [O49595-2]
UniGeneiAt.27677.
At.480.

3D structure databases

ProteinModelPortaliO49595.
SMRiO49595. Positions 47-121.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT3G51880.2.

PTM databases

iPTMnetiO49595.

Proteomic databases

PaxDbiO49595.
PRIDEiO49595.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G51880.1; AT3G51880.1; AT3G51880. [O49595-1]
AT3G51880.3; AT3G51880.3; AT3G51880. [O49595-1]
GeneIDi824351.
KEGGiath:AT3G51880.

Organism-specific databases

TAIRiAT3G51880.

Phylogenomic databases

eggNOGiKOG0381. Eukaryota.
COG5648. LUCA.
HOGENOMiHOG000197860.
InParanoidiO49595.
KOiK10802.
OMAiEDFRTTF.
PhylomeDBiO49595.

Miscellaneous databases

PROiO49595.

Gene expression databases

ExpressionAtlasiO49595. baseline and differential.
GenevisibleiO49595. AT.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiHMGB1_ARATH
AccessioniPrimary (citable) accession number: O49595
Secondary accession number(s): Q3EAL6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 2, 2010
Last sequence update: June 1, 1998
Last modified: July 6, 2016
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. 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.