Structure of PDB 8pmq Chain 2 Binding Site BS01

Receptor Information
>8pmq Chain 2 (length=355) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SELLDSFETEFAKFYTDSNLEETNLQKCLDHTHEFKSQLKKLKAHLNKHI
QESKKFKRKRELIIEKLSKSQRQWDHSVKKQIKYVSQQSNRFNKSTLNKL
KEFDIDSVYVNKLPKETMENVNEAIGYHILRYSIDNMPLGNKNEAFQYLK
DVYGITNKESTEFIEMGQIVHDLKKGDTESCLKWCSNEMESLSSNHTALS
SLKFDLYTLSAMSKVNKELKECTSLFIKEYCAAKHIFFDSPLFLIVLSGL
ISFQFFIKYKTIRELAHVDWTTKDELPFDVKLPDFLTHFHPIFICPVLKE
ETTTENPPYSLACHHIISKKALDRLSKNGTITFKCPYCPVNTSMSSTKKV
RFVML
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 chain8pmq Chain 2 Residue 501 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8pmq Multisite phosphorylation dictates selective E2-E3 pairing as revealed by Ubc8/UBE2H-GID/CTLH assemblies.
Resolution3.53 Å
Binding residue
(original residue number in PDB)		H381 C401
Binding residue
(residue number reindexed from 1)		H315 C335
Annotation score4
Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
Gene Ontology
Molecular Function
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
Biological Process
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0016567 protein ubiquitination
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045721 negative regulation of gluconeogenesis
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005777 peroxisome
GO:0005829 cytosol
GO:0034657 GID complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8pmq, PDBe:8pmq, PDBj:8pmq
PDBsum8pmq
PubMed38113892
UniProtQ12508|RMD5_YEAST E3 ubiquitin-protein ligase RMD5 (Gene Name=RMD5)

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