Structure of PDB 8pp7 Chain N Binding Site BS01

Receptor Information
>8pp7 Chain N (length=100) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTK
ECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYP
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain8pp7 Chain N Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8pp7 Structural basis of the histone ubiquitination read-write mechanism of RYBP-PRC1.
Resolution2.91 Å
Binding residue
(original residue number in PDB)		C51 C54 C72 C75
Binding residue
(residue number reindexed from 1)		C36 C39 C57 C60
Annotation score4
Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
Gene Ontology
Molecular Function
GO:0003682 chromatin binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
GO:0071535 RING-like zinc finger domain binding
GO:0140862 histone H2AK119 ubiquitin ligase activity
Biological Process
GO:0000122 negative regulation of transcription by RNA polymerase II
GO:0000278 mitotic cell cycle
GO:0001702 gastrulation with mouth forming second
GO:0006325 chromatin organization
GO:0006338 chromatin remodeling
GO:0007281 germ cell development
GO:0009948 anterior/posterior axis specification
GO:0010467 gene expression
GO:0016567 protein ubiquitination
GO:0040029 epigenetic regulation of gene expression
GO:0043433 negative regulation of DNA-binding transcription factor activity
Cellular Component
GO:0000151 ubiquitin ligase complex
GO:0000791 euchromatin
GO:0000792 heterochromatin
GO:0001739 sex chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0005737 cytoplasm
GO:0016604 nuclear body
GO:0031519 PcG protein complex
GO:0035102 PRC1 complex
GO:0071339 MLL1 complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8pp7, PDBe:8pp7, PDBj:8pp7
PDBsum8pp7
PubMed38528151
UniProtQ99496|RING2_HUMAN E3 ubiquitin-protein ligase RING2 (Gene Name=RNF2)

[Back to BioLiP]