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Protein

Chromobox protein homolog 6

Gene

CBX6

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility.1 Publication

GO - Molecular functioni

GO - Biological processi

  • chromatin modification Source: UniProtKB-KW
  • negative regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-HSA-2559580. Oxidative Stress Induced Senescence.

Names & Taxonomyi

Protein namesi
Recommended name:
Chromobox protein homolog 6
Gene namesi
Name:CBX6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 22

Organism-specific databases

HGNCiHGNC:1556. CBX6.

Subcellular locationi

GO - Cellular componenti

  • heterochromatin Source: Ensembl
  • nucleoplasm Source: Reactome
  • nucleus Source: UniProtKB
  • PcG protein complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA26131.

Polymorphism and mutation databases

BioMutaiCBX6.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 412412Chromobox protein homolog 6PRO_0000080210Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei107 – 1071PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiO95503.
MaxQBiO95503.
PaxDbiO95503.
PeptideAtlasiO95503.
PRIDEiO95503.

PTM databases

iPTMnetiO95503.
PhosphoSiteiO95503.

Expressioni

Gene expression databases

BgeeiO95503.
CleanExiHS_CBX6.
ExpressionAtlasiO95503. baseline and differential.
GenevisibleiO95503. HS.

Organism-specific databases

HPAiHPA048653.

Interactioni

Subunit structurei

Component of a PRC1-like complex. Interacts with PCGF1, PCGF2, PCGF3, BMI1, PCGF5, PCGF6, RING1 and RNF2.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
BMI1P352263EBI-3951758,EBI-2341576
PCGF3Q3KNV82EBI-3951758,EBI-2339807
RING1Q065873EBI-3951758,EBI-752313
RNF2Q994963EBI-3951758,EBI-722416

Protein-protein interaction databases

BioGridi117028. 67 interactions.
DIPiDIP-48605N.
IntActiO95503. 61 interactions.
MINTiMINT-7003039.
STRINGi9606.ENSP00000384490.

Structurei

Secondary structure

1
412
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi9 – 2214Combined sources
Beta strandi25 – 328Combined sources
Helixi37 – 393Combined sources
Beta strandi41 – 444Combined sources
Helixi45 – 473Combined sources
Helixi51 – 6212Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3GV6X-ray1.76A8-65[»]
3I90X-ray2.00A/B9-59[»]
ProteinModelPortaliO95503.
SMRiO95503. Positions 8-63.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO95503.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini11 – 6959ChromoPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 chromo domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2748. Eukaryota.
ENOG41122KC. LUCA.
GeneTreeiENSGT00530000063056.
HOGENOMiHOG000013217.
HOVERGENiHBG003608.
InParanoidiO95503.
KOiK11453.
OMAiTIKEFCS.
PhylomeDBiO95503.
TreeFamiTF106456.

Family and domain databases

InterProiIPR000953. Chromo/shadow_dom.
IPR017984. Chromo_dom_subgr.
IPR023780. Chromo_domain.
IPR016197. Chromodomain-like.
IPR023779. Chromodomain_CS.
[Graphical view]
PfamiPF00385. Chromo. 1 hit.
[Graphical view]
PRINTSiPR00504. CHROMODOMAIN.
SMARTiSM00298. CHROMO. 1 hit.
[Graphical view]
SUPFAMiSSF54160. SSF54160. 1 hit.
PROSITEiPS00598. CHROMO_1. 1 hit.
PS50013. CHROMO_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O95503-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MELSAVGERV FAAESIIKRR IRKGRIEYLV KWKGWAIKYS TWEPEENILD
60 70 80 90 100
SRLIAAFEQK ERERELYGPK KRGPKPKTFL LKARAQAEAL RISDVHFSVK
110 120 130 140 150
PSASASSPKL HSSAAVHRLK KDIRRCHRMS RRPLPRPDPQ GGSPGLRPPI
160 170 180 190 200
SPFSETVRII NRKVKPREPK RNRIILNLKV IDKGAGGGGA GQGAGALARP
210 220 230 240 250
KVPSRNRVIG KSKKFSESVL RTQIRHMKFG AFALYKPPPA PLVAPSPGKA
260 270 280 290 300
EASAPGPGLL LAAPAAPYDA RSSGSSGCPS PTPQSSDPDD TPPKLLPETV
310 320 330 340 350
SPSAPSWREP EVLDLSLPPE SAATSKRAPP EVTAAAGPAP PTAPEPAGAS
360 370 380 390 400
SEPEAGDWRP EMSPCSNVVV TDVTSNLLTV TIKEFCNPED FEKVAAGVAG
410
AAGGGGSIGA SK
Length:412
Mass (Da):43,898
Last modified:May 1, 1999 - v1
Checksum:i50C69233B9ADEEA3
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti292 – 2921P → L in AAH12111 (PubMed:15489334).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK293035 mRNA. Translation: BAF85724.1.
AL008583 Genomic DNA. Translation: CAA15431.1.
CH471095 Genomic DNA. Translation: EAW60276.1.
BC012111 mRNA. Translation: AAH12111.1.
BC064900 mRNA. Translation: AAH64900.1.
CCDSiCCDS13980.1.
RefSeqiNP_001290423.1. NM_001303494.1.
NP_055107.3. NM_014292.4.
UniGeneiHs.592201.

Genome annotation databases

EnsembliENST00000407418; ENSP00000384490; ENSG00000183741.
GeneIDi23466.
KEGGihsa:23466.
UCSCiuc003awl.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK293035 mRNA. Translation: BAF85724.1.
AL008583 Genomic DNA. Translation: CAA15431.1.
CH471095 Genomic DNA. Translation: EAW60276.1.
BC012111 mRNA. Translation: AAH12111.1.
BC064900 mRNA. Translation: AAH64900.1.
CCDSiCCDS13980.1.
RefSeqiNP_001290423.1. NM_001303494.1.
NP_055107.3. NM_014292.4.
UniGeneiHs.592201.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3GV6X-ray1.76A8-65[»]
3I90X-ray2.00A/B9-59[»]
ProteinModelPortaliO95503.
SMRiO95503. Positions 8-63.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117028. 67 interactions.
DIPiDIP-48605N.
IntActiO95503. 61 interactions.
MINTiMINT-7003039.
STRINGi9606.ENSP00000384490.

PTM databases

iPTMnetiO95503.
PhosphoSiteiO95503.

Polymorphism and mutation databases

BioMutaiCBX6.

Proteomic databases

EPDiO95503.
MaxQBiO95503.
PaxDbiO95503.
PeptideAtlasiO95503.
PRIDEiO95503.

Protocols and materials databases

DNASUi23466.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000407418; ENSP00000384490; ENSG00000183741.
GeneIDi23466.
KEGGihsa:23466.
UCSCiuc003awl.4. human.

Organism-specific databases

CTDi23466.
GeneCardsiCBX6.
HGNCiHGNC:1556. CBX6.
HPAiHPA048653.
neXtProtiNX_O95503.
PharmGKBiPA26131.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2748. Eukaryota.
ENOG41122KC. LUCA.
GeneTreeiENSGT00530000063056.
HOGENOMiHOG000013217.
HOVERGENiHBG003608.
InParanoidiO95503.
KOiK11453.
OMAiTIKEFCS.
PhylomeDBiO95503.
TreeFamiTF106456.

Enzyme and pathway databases

ReactomeiR-HSA-2559580. Oxidative Stress Induced Senescence.

Miscellaneous databases

ChiTaRSiCBX6. human.
EvolutionaryTraceiO95503.
GenomeRNAii23466.
PROiO95503.

Gene expression databases

BgeeiO95503.
CleanExiHS_CBX6.
ExpressionAtlasiO95503. baseline and differential.
GenevisibleiO95503. HS.

Family and domain databases

InterProiIPR000953. Chromo/shadow_dom.
IPR017984. Chromo_dom_subgr.
IPR023780. Chromo_domain.
IPR016197. Chromodomain-like.
IPR023779. Chromodomain_CS.
[Graphical view]
PfamiPF00385. Chromo. 1 hit.
[Graphical view]
PRINTSiPR00504. CHROMODOMAIN.
SMARTiSM00298. CHROMO. 1 hit.
[Graphical view]
SUPFAMiSSF54160. SSF54160. 1 hit.
PROSITEiPS00598. CHROMO_1. 1 hit.
PS50013. CHROMO_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Uterus.
  2. "The DNA sequence of human chromosome 22."
    Dunham I., Hunt A.R., Collins J.E., Bruskiewich R., Beare D.M., Clamp M., Smink L.J., Ainscough R., Almeida J.P., Babbage A.K., Bagguley C., Bailey J., Barlow K.F., Bates K.N., Beasley O.P., Bird C.P., Blakey S.E., Bridgeman A.M.
    , Buck D., Burgess J., Burrill W.D., Burton J., Carder C., Carter N.P., Chen Y., Clark G., Clegg S.M., Cobley V.E., Cole C.G., Collier R.E., Connor R., Conroy D., Corby N.R., Coville G.J., Cox A.V., Davis J., Dawson E., Dhami P.D., Dockree C., Dodsworth S.J., Durbin R.M., Ellington A.G., Evans K.L., Fey J.M., Fleming K., French L., Garner A.A., Gilbert J.G.R., Goward M.E., Grafham D.V., Griffiths M.N.D., Hall C., Hall R.E., Hall-Tamlyn G., Heathcott R.W., Ho S., Holmes S., Hunt S.E., Jones M.C., Kershaw J., Kimberley A.M., King A., Laird G.K., Langford C.F., Leversha M.A., Lloyd C., Lloyd D.M., Martyn I.D., Mashreghi-Mohammadi M., Matthews L.H., Mccann O.T., Mcclay J., Mclaren S., McMurray A.A., Milne S.A., Mortimore B.J., Odell C.N., Pavitt R., Pearce A.V., Pearson D., Phillimore B.J.C.T., Phillips S.H., Plumb R.W., Ramsay H., Ramsey Y., Rogers L., Ross M.T., Scott C.E., Sehra H.K., Skuce C.D., Smalley S., Smith M.L., Soderlund C., Spragon L., Steward C.A., Sulston J.E., Swann R.M., Vaudin M., Wall M., Wallis J.M., Whiteley M.N., Willey D.L., Williams L., Williams S.A., Williamson H., Wilmer T.E., Wilming L., Wright C.L., Hubbard T., Bentley D.R., Beck S., Rogers J., Shimizu N., Minoshima S., Kawasaki K., Sasaki T., Asakawa S., Kudoh J., Shintani A., Shibuya K., Yoshizaki Y., Aoki N., Mitsuyama S., Roe B.A., Chen F., Chu L., Crabtree J., Deschamps S., Do A., Do T., Dorman A., Fang F., Fu Y., Hu P., Hua A., Kenton S., Lai H., Lao H.I., Lewis J., Lewis S., Lin S.-P., Loh P., Malaj E., Nguyen T., Pan H., Phan S., Qi S., Qian Y., Ray L., Ren Q., Shaull S., Sloan D., Song L., Wang Q., Wang Y., Wang Z., White J., Willingham D., Wu H., Yao Z., Zhan M., Zhang G., Chissoe S., Murray J., Miller N., Minx P., Fulton R., Johnson D., Bemis G., Bentley D., Bradshaw H., Bourne S., Cordes M., Du Z., Fulton L., Goela D., Graves T., Hawkins J., Hinds K., Kemp K., Latreille P., Layman D., Ozersky P., Rohlfing T., Scheet P., Walker C., Wamsley A., Wohldmann P., Pepin K., Nelson J., Korf I., Bedell J.A., Hillier L.W., Mardis E., Waterston R., Wilson R., Emanuel B.S., Shaikh T., Kurahashi H., Saitta S., Budarf M.L., McDermid H.E., Johnson A., Wong A.C.C., Morrow B.E., Edelmann L., Kim U.J., Shizuya H., Simon M.I., Dumanski J.P., Peyrard M., Kedra D., Seroussi E., Fransson I., Tapia I., Bruder C.E., O'Brien K.P., Wilkinson P., Bodenteich A., Hartman K., Hu X., Khan A.S., Lane L., Tilahun Y., Wright H.
    Nature 402:489-495(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Lung and Uterus.
  5. "Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis."
    Cantin G.T., Yi W., Lu B., Park S.K., Xu T., Lee J.-D., Yates J.R. III
    J. Proteome Res. 7:1346-1351(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  6. "Interaction proteomics analysis of polycomb proteins defines distinct PRC1 Complexes in mammalian cells."
    Vandamme J., Volkel P., Rosnoblet C., Le Faou P., Angrand P.O.
    Mol. Cell. Proteomics 0:0-0(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION, IDENTIFICATION IN A PRC1-LIKE COMPLEX, INTERACTION WITH RING1; RNF2; PCGF1; PCGF2; PCGF3; BMI1; PCGF5 AND PCGF6.
  7. "Toward a comprehensive characterization of a human cancer cell phosphoproteome."
    Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J., Mohammed S.
    J. Proteome Res. 12:260-271(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-107, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma and Erythroleukemia.
  8. Cited for: X-RAY CRYSTALLOGRAPHY (1.76 ANGSTROMS) OF 8-65 IN COMPLEXES WITH H3K9 AND H3K27 PEPTIDES.

Entry informationi

Entry nameiCBX6_HUMAN
AccessioniPrimary (citable) accession number: O95503
Secondary accession number(s): A8KAH0, Q96EM5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 29, 2001
Last sequence update: May 1, 1999
Last modified: July 6, 2016
This is version 136 of the entry and version 1 of the sequence. [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

Miscellaneous

The human orthologuous proteins of Drosphila Polycomb group protein Pc, CBX2, CBX4, CBX6, CBX7 and CBX8, show distinct nulear localizations, contribute differently to transcriptional repression, and appear to be part of distinct PRC1-like protein complexes.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 22
    Human chromosome 22: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.