UniProtKB - Q8N488 (RYBP_HUMAN)
RING1 and YY1-binding protein
RYBP
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-like complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A 'Lys-119', rendering chromatin heritably changed in its expressibility (PubMed:25519132).
Component of a PRC1-like complex that mediates monoubiquitination of histone H2A 'Lys-119' on the X chromosome and is required for normal silencing of one copy of the X chromosome in XX females. May stimulate ubiquitination of histone H2A 'Lys-119' by recruiting the complex to target sites (By similarity).
Inhibits ubiquitination and subsequent degradation of TP53, and thereby plays a role in regulating transcription of TP53 target genes (PubMed:19098711).
May also regulate the ubiquitin-mediated proteasomal degradation of other proteins like FANK1 to regulate apoptosis (PubMed:14765135, PubMed:27060496).
May be implicated in the regulation of the transcription as a repressor of the transcriptional activity of E4TF1 (PubMed:11953439).
May bind to DNA (By similarity).
May play a role in the repression of tumor growth and metastasis in breast cancer by down-regulating SRRM3 (PubMed:27748911).
By similarity5 PublicationsRegions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 21 – 50 | RanBP2-typePROSITE-ProRule annotationAdd BLAST | 30 |
GO - Molecular functioni
- DNA binding Source: GO_Central
- metal ion binding Source: UniProtKB-KW
- transcription coregulator activity Source: GO_Central
- transcription corepressor activity Source: ProtInc
GO - Biological processi
- apoptotic process Source: UniProtKB-KW
- histone H2A monoubiquitination Source: UniProtKB
- multicellular organism development Source: ProtInc
- negative regulation of proteasomal ubiquitin-dependent protein catabolic process Source: UniProtKB
- negative regulation of transcription by RNA polymerase II Source: Ensembl
- positive regulation of apoptotic process Source: UniProtKB
- positive regulation of transcription, DNA-templated Source: UniProtKB
- regulation of transcription, DNA-templated Source: GO_Central
Keywordsi
Molecular function | DNA-binding, Repressor |
Biological process | Apoptosis, Transcription, Transcription regulation |
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
PathwayCommonsi | Q8N488 |
Reactomei | R-HSA-8939243, RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known R-HSA-8953750, Transcriptional Regulation by E2F6 |
SignaLinki | Q8N488 |
SIGNORi | Q8N488 |
Names & Taxonomyi
Protein namesi | Recommended name: RING1 and YY1-binding proteinAlternative name(s): Apoptin-associating protein 1 Short name: APAP-1 Death effector domain-associated factor Short name: DED-associated factor YY1 and E4TF1-associated factor 1 |
Gene namesi | Name:RYBP Synonyms:DEDAF, YEAF1 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:10480, RYBP |
MIMi | 607535, gene |
neXtProti | NX_Q8N488 |
VEuPathDBi | HostDB:ENSG00000163602 |
Subcellular locationi
Nucleus
- Nucleus 4 Publications
- nucleoplasm By similarity
Cytoplasm and Cytosol
- Cytoplasm 2 Publications
Note: Primarily found in the nucleus. Detected in a punctate pattern likely to represent Polycomb group (PcG) bodies (By similarity).By similarity
Nucleus
- nucleoplasm Source: HPA
- nucleus Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB-SubCell
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Organism-specific databases
DisGeNETi | 23429 |
PharmGKBi | PA34893 |
Miscellaneous databases
Pharosi | Q8N488, Tbio |
Genetic variation databases
BioMutai | RYBP |
DMDMi | 78102506 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000097550 | 1 – 228 | RING1 and YY1-binding proteinAdd BLAST | 228 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Cross-linki | 77 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 99 | PhosphoserineCombined sources | 1 | |
Modified residuei | 123 | PhosphoserineCombined sources | 1 | |
Modified residuei | 127 | PhosphoserineCombined sources | 1 | |
Modified residuei | 130 | PhosphoserineCombined sources | 1 | |
Modified residuei | 227 | PhosphoserineCombined sources | 1 |
Post-translational modificationi
Keywords - PTMi
Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
EPDi | Q8N488 |
jPOSTi | Q8N488 |
MassIVEi | Q8N488 |
MaxQBi | Q8N488 |
PaxDbi | Q8N488 |
PeptideAtlasi | Q8N488 |
PRIDEi | Q8N488 |
ProteomicsDBi | 71895 |
PTM databases
iPTMneti | Q8N488 |
PhosphoSitePlusi | Q8N488 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000163602, Expressed in chorionic villus and 252 other tissues |
Genevisiblei | Q8N488, HS |
Organism-specific databases
HPAi | ENSG00000163602, Low tissue specificity |
Interactioni
Subunit structurei
Monomer.
Component of repressive BCOR complex containing Polycomb group subcomplex at least composed of BCOR, PCGF1, RING1 and RNF2/RING2 (PubMed:16943429).
Component of PCR1-like complexes (PubMed:26687479, PubMed:20696397).
Interacts with PCGF1 (PubMed:26687479).
Part of a PCR1-like complex that contains AUTS2, PCGF5, RNF2, CSNK2B AND RYBP (PubMed:25519132).
Interacts with RNF2; the interaction is direct (PubMed:20696397).
Interacts with CBX2, YAF2, RING1 and RNF2 (By similarity).
Interacts with ubiquitin and ubiquitinated proteins (By similarity).
Interacts with ubiquitinated histone H2A (By similarity).
Interacts with apoptin, DEDD, FADD, CASP8, CASP10, YY1 and GABPB1 (PubMed:11395500, PubMed:11953439, PubMed:14765135). Together with GABPB1 and YY1, it forms a ternary complex, probably being the bridge factor between these two transcription factors (PubMed:11953439).
Interacts with MDM2, and thereby inhibits ubiquitination of TP53 (PubMed:19098711).
Identified in a ternary complex containing MDM2, TP53 and RYBP (PubMed:19098711).
Interacts with FANK1; may prevent the ubiquitin-mediated proteasomal degradation of FANK1 (PubMed:27060496).
Interacts with IFT57 (By similarity).
By similarity9 PublicationsBinary interactionsi
Q8N488
Protein-protein interaction databases
BioGRIDi | 116997, 104 interactors |
CORUMi | Q8N488 |
DIPi | DIP-41435N |
IntActi | Q8N488, 99 interactors |
MINTi | Q8N488 |
STRINGi | 9606.ENSP00000419494 |
Miscellaneous databases
RNActi | Q8N488, protein |
Structurei
Secondary structure
3D structure databases
SMRi | Q8N488 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q8N488 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 21 | DisorderedSequence analysisAdd BLAST | 21 | |
Regioni | 65 – 156 | DisorderedSequence analysisAdd BLAST | 92 | |
Regioni | 143 – 226 | Interaction with GABPB1 and FANK12 PublicationsAdd BLAST | 84 | |
Regioni | 172 – 228 | DisorderedSequence analysisAdd BLAST | 57 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 1 – 20 | Basic and acidic residuesSequence analysisAdd BLAST | 20 | |
Compositional biasi | 75 – 119 | Basic and acidic residuesSequence analysisAdd BLAST | 45 | |
Compositional biasi | 122 – 141 | Polar residuesSequence analysisAdd BLAST | 20 |
Domaini
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 21 – 50 | RanBP2-typePROSITE-ProRule annotationAdd BLAST | 30 |
Keywords - Domaini
Zinc-fingerPhylogenomic databases
eggNOGi | KOG4477, Eukaryota |
HOGENOMi | CLU_095374_0_0_1 |
InParanoidi | Q8N488 |
OrthoDBi | 1634090at2759 |
PhylomeDBi | Q8N488 |
TreeFami | TF350501 |
Family and domain databases
DisProti | DP00694 |
InterProi | View protein in InterPro IPR039958, RYBP/YAF2 IPR033774, YAF2_RYBP IPR001876, Znf_RanBP2 IPR036443, Znf_RanBP2_sf |
PANTHERi | PTHR12920, PTHR12920, 1 hit |
Pfami | View protein in Pfam PF17219, YAF2_RYBP, 1 hit PF00641, zf-RanBP, 1 hit |
SMARTi | View protein in SMART SM00547, ZnF_RBZ, 1 hit |
SUPFAMi | SSF90209, SSF90209, 1 hit |
PROSITEi | View protein in PROSITE PS01358, ZF_RANBP2_1, 1 hit PS50199, ZF_RANBP2_2, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MTMGDKKSPT RPKRQAKPAA DEGFWDCSVC TFRNSAEAFK CSICDVRKGT
60 70 80 90 100
STRKPRINSQ LVAQQVAQQY ATPPPPKKEK KEKVEKQDKE KPEKDKEISP
110 120 130 140 150
SVTKKNTNKK TKPKSDILKD PPSEANSIQS ANATTKTSET NHTSRPRLKN
160 170 180 190 200
VDRSTAQQLA VTVGNVTVII TDFKEKTRSS STSSSTVTSS AGSEQQNQSS
210 220
SGSESTDKGS SRSSTPKGDM SAVNDESF
Sequence cautioni
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 20 | A → T in AAH36459 (PubMed:15489334).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF179286 mRNA Translation: AAD51858.1 AB029551 mRNA Translation: BAA89486.1 Different initiation. AY228125 mRNA Translation: AAO73587.1 Different initiation. AF227959 mRNA Translation: AAK63197.1 Different initiation. BC014959 mRNA Translation: AAH14959.1 BC036459 mRNA Translation: AAH36459.1 |
RefSeqi | NP_036366.3, NM_012234.6 |
Genome annotation databases
Ensembli | ENST00000477973; ENSP00000419494; ENSG00000163602 |
GeneIDi | 23429 |
KEGGi | hsa:23429 |
UCSCi | uc003dpe.4, human |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF179286 mRNA Translation: AAD51858.1 AB029551 mRNA Translation: BAA89486.1 Different initiation. AY228125 mRNA Translation: AAO73587.1 Different initiation. AF227959 mRNA Translation: AAK63197.1 Different initiation. BC014959 mRNA Translation: AAH14959.1 BC036459 mRNA Translation: AAH36459.1 |
RefSeqi | NP_036366.3, NM_012234.6 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
3IXS | X-ray | 1.70 | B/D/F/H/J/L | 145-179 | [»] | |
SMRi | Q8N488 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 116997, 104 interactors |
CORUMi | Q8N488 |
DIPi | DIP-41435N |
IntActi | Q8N488, 99 interactors |
MINTi | Q8N488 |
STRINGi | 9606.ENSP00000419494 |
PTM databases
iPTMneti | Q8N488 |
PhosphoSitePlusi | Q8N488 |
Genetic variation databases
BioMutai | RYBP |
DMDMi | 78102506 |
Proteomic databases
EPDi | Q8N488 |
jPOSTi | Q8N488 |
MassIVEi | Q8N488 |
MaxQBi | Q8N488 |
PaxDbi | Q8N488 |
PeptideAtlasi | Q8N488 |
PRIDEi | Q8N488 |
ProteomicsDBi | 71895 |
Protocols and materials databases
Antibodypediai | 7772, 466 antibodies from 36 providers |
DNASUi | 23429 |
Genome annotation databases
Ensembli | ENST00000477973; ENSP00000419494; ENSG00000163602 |
GeneIDi | 23429 |
KEGGi | hsa:23429 |
UCSCi | uc003dpe.4, human |
Organism-specific databases
CTDi | 23429 |
DisGeNETi | 23429 |
GeneCardsi | RYBP |
HGNCi | HGNC:10480, RYBP |
HPAi | ENSG00000163602, Low tissue specificity |
MIMi | 607535, gene |
neXtProti | NX_Q8N488 |
PharmGKBi | PA34893 |
VEuPathDBi | HostDB:ENSG00000163602 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG4477, Eukaryota |
HOGENOMi | CLU_095374_0_0_1 |
InParanoidi | Q8N488 |
OrthoDBi | 1634090at2759 |
PhylomeDBi | Q8N488 |
TreeFami | TF350501 |
Enzyme and pathway databases
PathwayCommonsi | Q8N488 |
Reactomei | R-HSA-8939243, RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known R-HSA-8953750, Transcriptional Regulation by E2F6 |
SignaLinki | Q8N488 |
SIGNORi | Q8N488 |
Miscellaneous databases
BioGRID-ORCSi | 23429, 8 hits in 173 CRISPR screens |
ChiTaRSi | RYBP, human |
EvolutionaryTracei | Q8N488 |
GeneWikii | RYBP |
GenomeRNAii | 23429 |
Pharosi | Q8N488, Tbio |
PROi | PR:Q8N488 |
RNActi | Q8N488, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000163602, Expressed in chorionic villus and 252 other tissues |
Genevisiblei | Q8N488, HS |
Family and domain databases
DisProti | DP00694 |
InterProi | View protein in InterPro IPR039958, RYBP/YAF2 IPR033774, YAF2_RYBP IPR001876, Znf_RanBP2 IPR036443, Znf_RanBP2_sf |
PANTHERi | PTHR12920, PTHR12920, 1 hit |
Pfami | View protein in Pfam PF17219, YAF2_RYBP, 1 hit PF00641, zf-RanBP, 1 hit |
SMARTi | View protein in SMART SM00547, ZnF_RBZ, 1 hit |
SUPFAMi | SSF90209, SSF90209, 1 hit |
PROSITEi | View protein in PROSITE PS01358, ZF_RANBP2_1, 1 hit PS50199, ZF_RANBP2_2, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | RYBP_HUMAN | |
Accessioni | Q8N488Primary (citable) accession number: Q8N488 Secondary accession number(s): Q9P2W5, Q9UMW4 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 10, 2005 |
Last sequence update: | May 10, 2005 | |
Last modified: | February 23, 2022 | |
This is version 168 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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, Reference proteomeDocuments
- Human chromosome 3
Human chromosome 3: entries, gene names and cross-references to MIM - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references