9FJJ | pdb_00009fjj

Two PLK1 PBD proteins bound to CENP-U(39-114) phosphorylated at Thr78 and Thr98

• PDB DOI: https://doi.org/10.2210/pdb9FJJ/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-31 Released: 2025-09-24 
• Deposition Author(s): Ren, L., Gasper, R., Vetter, I.R., Musacchio, A.
• Funding Organization(s): European Research Council (ERC), German Research Foundation (DFG)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.242 (Depositor), 0.241 (DCC) 
• R-Value Work: 
  0.207 (Depositor), 0.207 (DCC) 
• R-Value Observed: 
  0.209 (Depositor) 

Starting Model: experimental

Literature

Two PLK1 PBD proteins bound to CENP-U(39-114) phosphorylated at Thr78 and Thr98

Ren, L., Gasper, R., Vetter, I.R., Musacchio, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 68.88 kDa 
• Atom Count: 4,159 
• Modeled Residue Count: 496 
• Deposited Residue Count: 600 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase PLK1	A, B	261	Homo sapiens	Mutation(s): 0  Gene Names: PLK1, PLK EC: 2.7.11.21
UniProt & NIH Common Fund Data Resources
Find proteins for P53350 (Homo sapiens) Explore P53350  Go to UniProtKB:  P53350
PHAROS:  P53350 GTEx:  ENSG00000166851

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Centromere protein U	C [auth U]	78	Homo sapiens	Mutation(s): 0  Gene Names: CENPU, ICEN24, KLIP1, MLF1IP, PBIP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q71F23 (Homo sapiens) Explore Q71F23  Go to UniProtKB:  Q71F23
PHAROS:  Q71F23 GTEx:  ENSG00000151725

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	D [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL	E [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	C [auth U]	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.242 (Depositor), 0.241 (DCC) 
• R-Value Work:  0.207 (Depositor), 0.207 (DCC) 
• R-Value Observed: 0.209 (Depositor) 

Diffraction Data: https://doi.org/10.15151/ESRF-ES-1101294876

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.79	α = 90
b = 134.17	β = 90
c = 60.89	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-24 
Deposition Author(s): Ren, L., Gasper, R., Vetter, I.R., Musacchio, A.

---

Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	951430
German Research Foundation (DFG)	Germany	1430

Revision History  

• Version 1.0: 2025-09-24
  Type: Initial release