7XT2

Crystal structure of TRIM72

• PDB DOI: https://doi.org/10.2210/pdb7XT2/pdb

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


• Deposited: 2022-05-15 Released: 2023-03-29 
• Deposition Author(s): Zhou, C., Ma, Y.M., Ding, L.
• Funding Organization(s): National Science Foundation (NSF, China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.255 
• R-Value Work: 0.219 
• R-Value Observed: 0.221 

Literature

Structural basis for TRIM72 oligomerization during membrane damage repair

Ma, Y., Ding, L., Li, Z., Zhou, C.

(2023) Nat Commun 14: 1555

• DOI: https://doi.org/10.1038/s41467-023-37198-1

Biological Assembly 1  

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

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

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 105.86 kDa 
• Atom Count: 6,142 
• Modelled Residue Count: 776 
• Deposited Residue Count: 954 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tripartite motif-containing protein 72	A [auth B], B [auth A]	477	Homo sapiens	Mutation(s): 0  Gene Names: TRIM72, MG53
UniProt & NIH Common Fund Data Resources
Find proteins for Q6ZMU5 (Homo sapiens) Explore Q6ZMU5  Go to UniProtKB:  Q6ZMU5
PHAROS:  Q6ZMU5 GTEx:  ENSG00000177238

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth B], D [auth B], E [auth A], F [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.255 
• R-Value Work: 0.219 
• R-Value Observed: 0.221 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.571	α = 90
b = 125.231	β = 91.45
c = 174.537	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-29 
Deposition Author(s): Zhou, C., Ma, Y.M., Ding, L.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	--

Revision History  

• Version 1.0: 2023-03-29
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description