7EL4 | pdb_00007el4

The crystal structure of p53p peptide fragment in complex with the N-terminal domain of MdmX

• PDB DOI: https://doi.org/10.2210/pdb7EL4/pdb

• Classification: ONCOPROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2021-04-08 Released: 2021-06-09 
• Deposition Author(s): Cheng, X.Y., Zhang, B.L., Li, Z.C., Kuang, Z.K., Su, Z.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free: 
  0.225 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.224 (Depositor), 0.220 (DCC) 

Starting Model: experimental

Literature

The crystal structure of the N-terminal domain of MdmX in complex with p53p peptide fragment

Cheng, X.Y., Zhang, B.L., Li, Z.C., Kuang, Z.K., Su, Z.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 15.2 kDa 
• Atom Count: 835 
• Modeled Residue Count: 94 
• Deposited Residue Count: 130 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellular tumor antigen p53,Protein Mdm4	A	130	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O15151 (Homo sapiens) Explore O15151  Go to UniProtKB:  O15151
PHAROS:  O15151 GTEx:  ENSG00000198625
Find proteins for P04637 (Homo sapiens) Explore P04637  Go to UniProtKB:  P04637
PHAROS:  P04637 GTEx:  ENSG00000141510
UniProt Groups	O15151P04637

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
O4B	B [auth A], C [auth A]	1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE C12 H24 O6 XEZNGIUYQVAUSS-UHFFFAOYSA-N
MG	D [auth A], E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free:  0.225 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.224 (Depositor), 0.220 (DCC) 

Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.097	α = 90
b = 65.097	β = 90
c = 94.977	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
autoPROC	data processing
XDS	data reduction
XSCALE	data scaling
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-06-09 
Deposition Author(s): Cheng, X.Y., Zhang, B.L., Li, Z.C., Kuang, Z.K., Su, Z.D.

Revision History  

• Version 1.0: 2021-06-09
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Database references, Derived calculations, Refinement description