Structure of PDB 6msd Chain c Binding Site BS01

Receptor Information
>6msd Chain c (length=287) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDDYTVRVIDVF
AMPQSGTGVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLS
GVDINTQQSFEALSERAVAVVVDPIQSVKGKVVIDAFRLINANMMVLGHE
PRQTTSNLGHLNKPSIQALIHGLNRHYYSITINYRKNELEQKMLLNLHKK
SWMEGLTLQDYSEHCKHNESVVKEMLELAKNYNKAVEEEDKMTPEQLAIK
NVGKQDPKRHLEEHVDVLMTSNIVQCLAAMLDTVVFK
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 chain6msd Chain c 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]
PDB6msd Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		E52 H113 H115 D126
Binding residue
(residue number reindexed from 1)		E29 H90 H92 D103
Annotation score4
Enzymatic activity
Enzyme Commision number 3.4.19.-
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008237 metallopeptidase activity
GO:0046872 metal ion binding
GO:0061133 endopeptidase activator activity
GO:0061578 K63-linked deubiquitinase activity
GO:0070628 proteasome binding
GO:0140492 metal-dependent deubiquitinase activity
Biological Process
GO:0000724 double-strand break repair via homologous recombination
GO:0006281 DNA repair
GO:0006303 double-strand break repair via nonhomologous end joining
GO:0006508 proteolysis
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0016579 protein deubiquitination
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045471 response to ethanol
GO:0061136 regulation of proteasomal protein catabolic process
GO:0070536 protein K63-linked deubiquitination
Cellular Component
GO:0000502 proteasome complex
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:0008541 proteasome regulatory particle, lid subcomplex
GO:0022624 proteasome accessory complex
GO:0031597 cytosolic proteasome complex
GO:0034774 secretory granule lumen
GO:1904813 ficolin-1-rich granule lumen

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6msd, PDBe:6msd, PDBj:6msd
PDBsum6msd
PubMed30479383
UniProtO00487|PSDE_HUMAN 26S proteasome non-ATPase regulatory subunit 14 (Gene Name=PSMD14)

[Back to BioLiP]