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Protein

Probable histone H2A variant 3

Gene

At1g52740

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Variant histones H2A are synthesized throughout the cell cycle and are very different from classical S-phase regulated H2A. May replace conventional H2A in a subset of nucleosomes. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

  • chromatin silencing Source: GO_Central
  • defense response to bacterium Source: TAIR
  • response to temperature stimulus Source: TAIR
Complete GO annotation...

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable histone H2A variant 3
Alternative name(s):
H2A.F/Z 3
HTA9
Gene namesi
Ordered Locus Names:At1g52740
ORF Names:F14G24.1
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G52740.

Subcellular locationi

GO - Cellular componenti

  • nuclear chromatin Source: GO_Central
  • nucleosome Source: UniProtKB-KW
  • vacuole Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 134134Probable histone H2A variant 3PRO_0000055314Add
BLAST

Proteomic databases

PaxDbiQ9C944.
PRIDEiQ9C944.

Expressioni

Gene expression databases

GenevisibleiQ9C944. AT.

Interactioni

Subunit structurei

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.

Binary interactionsi

WithEntry#Exp.IntActNotes
CPK11Q390169EBI-1537419,EBI-979321

Protein-protein interaction databases

BioGridi26932. 3 interactions.
IntActiQ9C944. 3 interactions.
STRINGi3702.AT1G52740.1.

Structurei

3D structure databases

ProteinModelPortaliQ9C944.
SMRiQ9C944. Positions 27-128.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2A family.Curated

Phylogenomic databases

eggNOGiKOG1757. Eukaryota.
COG5262. LUCA.
HOGENOMiHOG000234652.
InParanoidiQ9C944.
KOiK11251.
OMAiIHRYLMN.
PhylomeDBiQ9C944.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR002119. Histone_H2A.
IPR007125. Histone_H2A/H2B/H3.
IPR032454. Histone_H2A_C.
IPR032458. Histone_H2A_CS.
[Graphical view]
PfamiPF00125. Histone. 1 hit.
PF16211. Histone_H2A_C. 1 hit.
[Graphical view]
PRINTSiPR00620. HISTONEH2A.
SMARTiSM00414. H2A. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00046. HISTONE_H2A. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9C944-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGKGAKGLI MGKPSGSDKD KDKKKPITRS SRAGLQFPVG RVHRLLKTRS
60 70 80 90 100
TAHGRVGATA AVYTAAILEY LTAEVLELAG NASKDLKVKR ISPRHLQLAI
110 120 130
RGDEELDTLI KGTIAGGGVI PHIHKSLINK SAKE
Length:134
Mass (Da):14,272
Last modified:June 1, 2001 - v1
Checksum:iBE63E2B00DC3955A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC019018 Genomic DNA. Translation: AAG52265.1.
CP002684 Genomic DNA. Translation: AEE32847.1.
AY054557 mRNA. Translation: AAK96748.1.
AY058147 mRNA. Translation: AAL25563.1.
AY084390 mRNA. Translation: AAM60967.1.
AY064631 mRNA. Translation: AAL47344.1.
PIRiD96568.
RefSeqiNP_175683.1. NM_104152.3.
UniGeneiAt.22624.
At.37537.

Genome annotation databases

EnsemblPlantsiAT1G52740.1; AT1G52740.1; AT1G52740.
GeneIDi841707.
GrameneiAT1G52740.1; AT1G52740.1; AT1G52740.
KEGGiath:AT1G52740.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC019018 Genomic DNA. Translation: AAG52265.1.
CP002684 Genomic DNA. Translation: AEE32847.1.
AY054557 mRNA. Translation: AAK96748.1.
AY058147 mRNA. Translation: AAL25563.1.
AY084390 mRNA. Translation: AAM60967.1.
AY064631 mRNA. Translation: AAL47344.1.
PIRiD96568.
RefSeqiNP_175683.1. NM_104152.3.
UniGeneiAt.22624.
At.37537.

3D structure databases

ProteinModelPortaliQ9C944.
SMRiQ9C944. Positions 27-128.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi26932. 3 interactions.
IntActiQ9C944. 3 interactions.
STRINGi3702.AT1G52740.1.

Proteomic databases

PaxDbiQ9C944.
PRIDEiQ9C944.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G52740.1; AT1G52740.1; AT1G52740.
GeneIDi841707.
GrameneiAT1G52740.1; AT1G52740.1; AT1G52740.
KEGGiath:AT1G52740.

Organism-specific databases

TAIRiAT1G52740.

Phylogenomic databases

eggNOGiKOG1757. Eukaryota.
COG5262. LUCA.
HOGENOMiHOG000234652.
InParanoidiQ9C944.
KOiK11251.
OMAiIHRYLMN.
PhylomeDBiQ9C944.

Miscellaneous databases

PROiQ9C944.

Gene expression databases

GenevisibleiQ9C944. AT.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR002119. Histone_H2A.
IPR007125. Histone_H2A/H2B/H3.
IPR032454. Histone_H2A_C.
IPR032458. Histone_H2A_CS.
[Graphical view]
PfamiPF00125. Histone. 1 hit.
PF16211. Histone_H2A_C. 1 hit.
[Graphical view]
PRINTSiPR00620. HISTONEH2A.
SMARTiSM00414. H2A. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00046. HISTONE_H2A. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  4. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  5. "Constitutive expression exposes functional redundancy between the Arabidopsis histone H2A gene HTA1 and other H2A gene family members."
    Yi H., Sardesai N., Fujinuma T., Chan C.-W., Veena X., Gelvin S.B.
    Plant Cell 18:1575-1589(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NOMENCLATURE.

Entry informationi

Entry nameiH2AV3_ARATH
AccessioniPrimary (citable) accession number: Q9C944
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 7, 2006
Last sequence update: June 1, 2001
Last modified: April 13, 2016
This is version 102 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.