8EOM

TUDOR DOMAIN OF TUMOR SUPPRESSOR P53BP1 WITH MFP-5973

• PDB DOI: https://doi.org/10.2210/pdb8EOM/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-10-03 Released: 2023-01-18 
• Deposition Author(s): The, J., Hong, Z., Headey, S., Gunzburg, M., Doak, B., James, L.I., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Structural Genomics Consortium (SGC)
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.244 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 

Starting Model: experimental

Literature

TUDOR DOMAIN OF TUMOR SUPPRESSOR P53BP1 WITH MFP-5973

The, J., Hong, Z., Headey, S., Gunzburg, M., Doak, B., James, L.I., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29 kDa 
• Atom Count: 2,078 
• Modelled Residue Count: 243 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TP53-binding protein 1	A, B	125	Homo sapiens	Mutation(s): 0  Gene Names: TP53BP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q12888 (Homo sapiens) Explore Q12888  Go to UniProtKB:  Q12888
PHAROS:  Q12888 GTEx:  ENSG00000067369

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
WNQ (Subject of Investigation/LOI)	C [auth A], G [auth B]	4-(4-methylpiperazine-1-sulfonyl)benzamide C12 H17 N3 O3 S DGYBGNBRDCUNEP-UHFFFAOYSA-N
SO4	H [auth B], I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
UNX	D [auth A], E [auth A], F [auth A]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.244 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 
• Space Group: P 2₁ 2₁ 2₁
• Diffraction Data: https://doi.org/10.18430/M38EOM

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.523	α = 90
b = 51.188	β = 90
c = 105.601	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-01-18 
Deposition Author(s): The, J., Hong, Z., Headey, S., Gunzburg, M., Doak, B., James, L.I., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Structural Genomics Consortium (SGC)

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Funding Organization	Location	Grant Number
Other private		--

Revision History  

• Version 1.0: 2023-01-18
  Type: Initial release
  
• Version 1.1: 2023-10-25
  Changes: Data collection, Refinement description