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Protein

Chromobox protein homolog 3

Gene

CBX3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Seems to be involved in transcriptional silencing in heterochromatin-like complexes. Recognizes and binds histone H3 tails methylated at 'Lys-9', leading to epigenetic repression. May contribute to the association of the heterochromatin with the inner nuclear membrane through its interaction with lamin B receptor (LBR). Involved in the formation of functional kinetochore through interaction with MIS12 complex proteins. Contributes to the conversion of local chromatin to a heterochromatin-like repressive state through H3 'Lys-9' trimethylation, mediates the recruitment of the methyltransferases SUV39H1 and/or SUV39H2 by the PER complex to the E-box elements of the circadian target genes such as PER2 itself or PER1. Mediates the recruitement of NIPBL to sites of DNA damage at double-strand breaks (DSBs) (PubMed:28167679).By similarity1 Publication

GO - Molecular functioni

  • enzyme binding Source: UniProtKB
  • histone methyltransferase binding Source: BHF-UCL
  • identical protein binding Source: IntAct
  • protein domain specific binding Source: UniProtKB

GO - Biological processi

  • chromatin remodeling Source: UniProtKB
  • negative regulation of G0 to G1 transition Source: Reactome
  • negative regulation of transcription, DNA-templated Source: UniProtKB
  • rhythmic process Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionChromatin regulator, Repressor
Biological processBiological rhythms, Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-HSA-427389 ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
R-HSA-73777 RNA Polymerase I Chain Elongation
R-HSA-8953750 Transcriptional Regulation by E2F6
SIGNORiQ13185

Names & Taxonomyi

Protein namesi
Recommended name:
Chromobox protein homolog 3
Alternative name(s):
HECH
Heterochromatin protein 1 homolog gamma
Short name:
HP1 gamma
Modifier 2 protein
Gene namesi
Name:CBX3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

EuPathDBiHostDB:ENSG00000122565.18
HGNCiHGNC:1553 CBX3
MIMi604477 gene
neXtProtiNX_Q13185

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

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi11335
OpenTargetsiENSG00000122565
PharmGKBiPA26128

Chemistry databases

ChEMBLiCHEMBL3826866

Polymorphism and mutation databases

BioMutaiCBX3
DMDMi116241284

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000802032 – 183Chromobox protein homolog 3Add BLAST182

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineBy similarity1
Modified residuei5N6-acetyllysine; alternateBy similarity1
Cross-linki5Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources
Modified residuei10N6-acetyllysine; alternateCombined sources1
Cross-linki10Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources
Cross-linki21Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei44N6-acetyllysineCombined sources1
Modified residuei50N6-acetyllysineCombined sources1
Modified residuei93PhosphoserineCombined sources1
Modified residuei95PhosphoserineCombined sources1
Modified residuei97PhosphoserineCombined sources1
Modified residuei99PhosphoserineCombined sources1
Cross-linki103Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki154Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei176PhosphoserineCombined sources1

Post-translational modificationi

Phosphorylated by PIM1. Phosphorylated during interphase and possibly hyper-phosphorylated during mitosis.2 Publications

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ13185
MaxQBiQ13185
PaxDbiQ13185
PeptideAtlasiQ13185
PRIDEiQ13185
ProteomicsDBi59210
TopDownProteomicsiQ13185

2D gel databases

SWISS-2DPAGEiQ13185

PTM databases

iPTMnetiQ13185
PhosphoSitePlusiQ13185
SwissPalmiQ13185

Expressioni

Gene expression databases

BgeeiENSG00000122565
CleanExiHS_CBX3
ExpressionAtlasiQ13185 baseline and differential
GenevisibleiQ13185 HS

Organism-specific databases

HPAiCAB001973
HPA004902

Interactioni

Subunit structurei

Binds directly to CHAF1A. Interacts with histone H3 methylated at 'Lys-9'. Part of the E2F6.com-1 complex in G0 phase composed of E2F6, MGA, MAX, TFDP1, CBX3, BAT8, EUHMTASE1, RING1, RNF2, MBLR, L3MBTL2 and YAF2. Interacts with LBR, INCENP, TRIM28/TIF1B, KMT5B, KMT5C and SP100. Interacts with TIF1A. Interacts with MIS12 and DSN1. Can interact directly with CBX5 via the chromoshadow domain. Interacts with POGZ. Interacts with CHAMP1. Interacts with ASXL1. The large PER complex involved in the histone methylation is composed of at least PER2, CBX3, TRIM28, SUV39H1 and/or SUV39H2; CBX3 mediates the formation of the complex. Interacts with INCENP. Interacts with NIPBL (via PxVxL motif) (PubMed:28167679).13 Publications

Binary interactionsi

Show more details

GO - Molecular functioni

  • enzyme binding Source: UniProtKB
  • histone methyltransferase binding Source: BHF-UCL
  • identical protein binding Source: IntAct
  • protein domain specific binding Source: UniProtKB

Protein-protein interaction databases

BioGridi116463, 118 interactors
ComplexPortaliCPX-469 L3MBTL1 complex
CORUMiQ13185
DIPiDIP-5985N
IntActiQ13185, 114 interactors
MINTiQ13185
STRINGi9606.ENSP00000336687

Structurei

Secondary structure

1183
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi29 – 41Combined sources13
Beta strandi44 – 51Combined sources8
Helixi56 – 58Combined sources3
Beta strandi60 – 63Combined sources4
Helixi64 – 66Combined sources3
Helixi70 – 80Combined sources11
Helixi116 – 119Combined sources4
Beta strandi123 – 130Combined sources8
Beta strandi137 – 142Combined sources6
Beta strandi149 – 152Combined sources4
Helixi153 – 159Combined sources7
Helixi161 – 169Combined sources9
Beta strandi172 – 174Combined sources3

3D structure databases

ProteinModelPortaliQ13185
SMRiQ13185
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ13185

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 88Chromo 1PROSITE-ProRule annotationAdd BLAST59
Domaini121 – 179Chromo 2; shadow subtypePROSITE-ProRule annotationAdd BLAST59

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG1911 Eukaryota
ENOG4111JKD LUCA
GeneTreeiENSGT00510000046310
HOGENOMiHOG000220852
HOVERGENiHBG000400
InParanoidiQ13185
KOiK11586
OMAiFYEEHIQ
OrthoDBiEOG091G0RBS
PhylomeDBiQ13185
TreeFamiTF350503

Family and domain databases

CDDicd00024 CHROMO, 1 hit
InterProiView protein in InterPro
IPR038033 CBX3
IPR016197 Chromo-like_dom_sf
IPR000953 Chromo/chromo_shadow_dom
IPR017984 Chromo_dom_subgr
IPR023780 Chromo_domain
IPR008251 Chromo_shadow_dom
IPR023779 Chromodomain_CS
PANTHERiPTHR22812:SF110 PTHR22812:SF110, 1 hit
PfamiView protein in Pfam
PF00385 Chromo, 1 hit
PF01393 Chromo_shadow, 1 hit
PRINTSiPR00504 CHROMODOMAIN
SMARTiView protein in SMART
SM00298 CHROMO, 2 hits
SM00300 ChSh, 1 hit
SUPFAMiSSF54160 SSF54160, 2 hits
PROSITEiView protein in PROSITE
PS00598 CHROMO_1, 1 hit
PS50013 CHROMO_2, 2 hits

Sequencei

Sequence statusi: Complete.

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

Q13185-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASNKTTLQK MGKKQNGKSK KVEEAEPEEF VVEKVLDRRV VNGKVEYFLK
60 70 80 90 100
WKGFTDADNT WEPEENLDCP ELIEAFLNSQ KAGKEKDGTK RKSLSDSESD
110 120 130 140 150
DSKSKKKRDA ADKPRGFARG LDPERIIGAT DSSGELMFLM KWKDSDEADL
160 170 180
VLAKEANMKC PQIVIAFYEE RLTWHSCPED EAQ
Length:183
Mass (Da):20,811
Last modified:October 17, 2006 - v4
Checksum:i5928C63E0C93A76A
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti111A → G in AAH14380 (PubMed:15489334).Curated1
Sequence conflicti111A → V in AAF62370 (Ref. 4) Curated1
Sequence conflicti130T → I in AAB48101 (PubMed:8663349).Curated1
Sequence conflicti130T → I in BAA83340 (PubMed:10664448).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U26312 mRNA Translation: AAB48101.1
AB030905 mRNA Translation: BAA83340.1
AF136630 mRNA Translation: AAF62370.1
BC000954 mRNA Translation: AAH00954.1
BC014380 mRNA Translation: AAH14380.1
CCDSiCCDS5398.1
RefSeqiNP_009207.2, NM_007276.4
NP_057671.2, NM_016587.3
XP_005249668.1, XM_005249611.3
UniGeneiHs.381189

Genome annotation databases

EnsembliENST00000337620; ENSP00000336687; ENSG00000122565
ENST00000396386; ENSP00000379670; ENSG00000122565
GeneIDi11335
KEGGihsa:11335
UCSCiuc003sxt.4 human

Similar proteinsi

Entry informationi

Entry nameiCBX3_HUMAN
AccessioniPrimary (citable) accession number: Q13185
Secondary accession number(s): Q96CD7
, Q99409, Q9BVS3, Q9P0Z6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: October 17, 2006
Last modified: July 18, 2018
This is version 196 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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