9UG8 | pdb_00009ug8

Cryo-EM structure of CDK2/CyclinE bound to a lysine covalent inhibitor

PDB DOI: https://doi.org/10.2210/pdb9UG8/pdb
EM Map EMD-64132: EMDB EMDataResource

Classification: CELL CYCLE
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2025-04-11 Released: 2026-10-28
Deposition Author(s): Jia, S., Li, S., Wu, C., Xu, H.E., Ding, K., Fan, M., Ma, D.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.87 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9UG8

This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM structure of Cdk2/CyclinE bound to a lysine covalent inhibitor

Jia, S., Li, S., Wu, C., Xu, H.E., Ding, K., Fan, M., Ma, D.

To be published.

Macromolecule Content

Total Structure Weight: 61.85 kDa
Atom Count: 4,295
Modeled Residue Count: 528
Deposited Residue Count: 534
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclin-dependent kinase 2	A [auth C]	289	Homo sapiens	Mutation(s): 0 Gene Names: CDK2, CDKN2 EC: 2.7.11.22
UniProt & NIH Common Fund Data Resources
Find proteins for P24941 (Homo sapiens) Explore P24941 Go to UniProtKB: P24941
PHAROS: P24941 GTEx: ENSG00000123374
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P24941
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
G1/S-specific cyclin-E1	B	245	Homo sapiens	Mutation(s): 0 Gene Names: CCNE1, CCNE
UniProt & NIH Common Fund Data Resources
Find proteins for P24864 (Homo sapiens) Explore P24864 Go to UniProtKB: P24864
PHAROS: P24864 GTEx: ENSG00000105173
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P24864
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
TPO Query on TPO	A [auth C]	THR	Phosphorylation	C₄ H₁₀ N O₆ P

Non-standard Monomers 1 Unique
ID	Chains	Type	Formula	2D Diagram
A1EPW Query on A1EPW	A [auth C]	L-PEPTIDE LINKING	C₃₁ H₄₂ Cl N₈ O₃ P

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.87 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-28

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32301016

Revision History (Full details and data files)

Version 1.0: 2026-10-28
Type: Initial release