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Protein

Histone H2B.1

Gene

H2B-1

Organism
Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Core component of nucleosome. 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.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Histone H2B.1
Alternative name(s):
LeH2B-1
Gene namesi
Name:H2B-1
OrganismiSolanum lycopersicum (Tomato) (Lycopersicon esculentum)
Taxonomic identifieri4081 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaeasteridslamiidsSolanalesSolanaceaeSolanoideaeSolaneaeSolanumLycopersicon
Proteomesi
  • UP000004994 Componenti: Chromosome 6

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 142141Histone H2B.1PRO_0000240449Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei7 – 71N6-acetyllysineBy similarity
Modified residuei33 – 331N6-acetyllysineBy similarity
Modified residuei34 – 341N6-acetyllysineBy similarity
Cross-linki138 – 138Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity

Post-translational modificationi

Can be acetylated to form H2BK6ac, H2BK33ac and H2BK34ac.By similarity
Monoubiquitinated to form H2BK143ub1; may give a specific tag for epigenetic transcriptional activation.By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Ubl conjugation

Proteomic databases

PaxDbiO65821.
PRIDEiO65821.

Expressioni

Tissue specificityi

Ubiquitous. Highest level in shoots, fruits and young flower buds, including petals, anthers and ovules.1 Publication

Inductioni

By gibberellins GA1, GA3, GA4 and GA9.1 Publication

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.

Protein-protein interaction databases

STRINGi4081.Solyc06g074790.1.1.

Structurei

3D structure databases

ProteinModelPortaliO65821.
SMRiO65821. Positions 20-142.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H2B family.Curated

Phylogenomic databases

eggNOGiKOG1744. Eukaryota.
ENOG4111NV5. LUCA.
InParanoidiO65821.
KOiK11252.
OMAiTHKSGIS.
OrthoDBiEOG09360WOA.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000558. Histone_H2B.
[Graphical view]
PANTHERiPTHR23428. PTHR23428. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00621. HISTONEH2B.
SMARTiSM00427. H2B. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00357. HISTONE_H2B. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

O65821-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPKAGKKPA EKKPVEEKKA EEVPAEKKPK AGKKLPKDAG ADKKKKKSKK
60 70 80 90 100
SVETYKIYIF KVLKQVHPDI GISSKSMGIM NSFINDIFEK LAQESSRLAR
110 120 130 140
INKKPTITSR EIQTAVRLVL PGELAKHAVS EGTKAVTKFT SN
Length:142
Mass (Da):15,671
Last modified:January 23, 2007 - v4
Checksum:i9890EFF6A90A909F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ224934 mRNA. Translation: CAA12233.1.
PIRiT06393.
RefSeqiNP_001233989.1. NM_001247060.1.
UniGeneiLes.4442.

Genome annotation databases

EnsemblPlantsiSolyc06g074790.1.1; Solyc06g074790.1.1; Solyc06g074790.1.
GeneIDi778282.
GrameneiSolyc06g074790.1.1; Solyc06g074790.1.1; Solyc06g074790.1.
KEGGisly:778282.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ224934 mRNA. Translation: CAA12233.1.
PIRiT06393.
RefSeqiNP_001233989.1. NM_001247060.1.
UniGeneiLes.4442.

3D structure databases

ProteinModelPortaliO65821.
SMRiO65821. Positions 20-142.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi4081.Solyc06g074790.1.1.

Proteomic databases

PaxDbiO65821.
PRIDEiO65821.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiSolyc06g074790.1.1; Solyc06g074790.1.1; Solyc06g074790.1.
GeneIDi778282.
GrameneiSolyc06g074790.1.1; Solyc06g074790.1.1; Solyc06g074790.1.
KEGGisly:778282.

Phylogenomic databases

eggNOGiKOG1744. Eukaryota.
ENOG4111NV5. LUCA.
InParanoidiO65821.
KOiK11252.
OMAiTHKSGIS.
OrthoDBiEOG09360WOA.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_H2A/H2B/H3.
IPR000558. Histone_H2B.
[Graphical view]
PANTHERiPTHR23428. PTHR23428. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00621. HISTONEH2B.
SMARTiSM00427. H2B. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00357. HISTONE_H2B. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiH2B1_SOLLC
AccessioniPrimary (citable) accession number: O65821
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 80 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Caution

To ensure consistency between histone entries, we follow the 'Brno' nomenclature for histone modifications, with positions referring to those used in the literature for the 'closest' model organism. Due to slight variations in histone sequences between organisms and to the presence of initiator methionine in UniProtKB/Swiss-Prot sequences, the actual positions of modified amino acids in the sequence generally differ. In this entry the following conventions are used: H2BK6ac = acetylated Lys-7; H2BK33ac = acetylated Lys-33; H2BK34ac = acetylated Lys-34; H2BK143ub1 = monoubiquitinated Lys-138.Curated

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.