8AMR | pdb_00008amr

Coiled-coil domain of human TRIM3

• PDB DOI: https://doi.org/10.2210/pdb8AMR/pdb

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


• Deposited: 2022-08-04 Released: 2023-11-15 
• Deposition Author(s): Perez-Borrajero, C., Murciano, B., Hennig, J.
• Funding Organization(s): EIPOD fellowship under Marie Sklodowska-Curie Actions COFUND, German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.80 Å
• R-Value Free: 
  0.321 (Depositor), 0.320 (DCC) 
• R-Value Work: 
  0.273 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.275 (Depositor) 

Literature

Structural and biophysical studies of TRIM2 and TRIM3

Perez-Borrajero, C., Hennig, J.

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.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 105.26 kDa 
• Atom Count: 3,265 
• Modeled Residue Count: 456 
• Deposited Residue Count: 957 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tripartite motif-containing protein 3	A, B, C	319	Homo sapiens	Mutation(s): 0  Gene Names: TRIM3, BERP, RNF22, RNF97 EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for O75382 (Homo sapiens) Explore O75382  Go to UniProtKB:  O75382
PHAROS:  O75382 GTEx:  ENSG00000110171

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PE8	D [auth B]	3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL C16 H34 O9 GLZWNFNQMJAZGY-UHFFFAOYSA-N
GOL	E [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.80 Å
• R-Value Free:  0.321 (Depositor), 0.320 (DCC) 
• R-Value Work:  0.273 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.275 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.9	α = 90
b = 167.9	β = 90
c = 127.2	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data scaling
XDS	data reduction
MxCuBE	data collection
PHENIX	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-15 
Deposition Author(s): Perez-Borrajero, C., Murciano, B., Hennig, J.

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Funding Organization	Location	Grant Number
EIPOD fellowship under Marie Sklodowska-Curie Actions COFUND	Germany	664726
German Research Foundation (DFG)	Germany	HE 7291_1

Revision History  

• Version 1.0: 2023-11-15
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Derived calculations