5UML | pdb_00005uml

CRYSTAL STRUCTURE OF HUMAN MDMX IN COMPLEX WITH 12-MER PEPTIDE INHIBITOR M3

PDB DOI: https://doi.org/10.2210/pdb5UML/pdb

Classification: Cell Cycle,Antitumor Protein/Inhibitor
Organism(s): Homo sapiens, synthetic construct
Mutation(s): Yes

Deposited: 2017-01-27 Released: 2018-01-31
Deposition Author(s): Pazgier, M., Gohain, N., Tolbert, W.D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.315 (Depositor), 0.315 (DCC)
R-Value Work:
0.258 (Depositor), 0.265 (DCC)
R-Value Observed:
0.261 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 5UML

This is version 1.3 of the entry. See complete history.

Literature

Design of ultrahigh-affinity and dual-specificity peptide antagonists of MDM2 and MDMX for p53 activation

Pazgier, M., Gohain, N., Tolbert, W.D.

To be published.

Macromolecule Content

Total Structure Weight: 44.47 kDa
Atom Count: 3,028
Modeled Residue Count: 378
Deposited Residue Count: 388
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein Mdm4	A, C [auth B], E, G	85	Homo sapiens	Mutation(s): 3
UniProt & NIH Common Fund Data Resources
Find proteins for O15151 (Homo sapiens) Explore O15151 Go to UniProtKB: O15151
PHAROS: O15151 GTEx: ENSG00000198625
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O15151
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PEPTIDE INHIBITOR M3	B [auth C], D, F, H	12	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.315 (Depositor), 0.315 (DCC)
R-Value Work: 0.258 (Depositor), 0.265 (DCC)
R-Value Observed: 0.261 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.413	α = 90
b = 88.027	β = 90.66
c = 46.3	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PHASER	phasing
HKL-2000	data scaling
HKL-2000	data reduction

Structure Validation

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Entry History

Deposition Data

Released Date: 2018-01-31

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-01-31
Type: Initial release
Version 1.1: 2019-04-17
Changes: Author supporting evidence, Data collection, Source and taxonomy
Version 1.2: 2020-10-21
Changes: Database references, Structure summary
Version 1.3: 2023-10-04
Changes: Data collection, Database references, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.