7HMM | pdb_00007hmm

PanDDA analysis group deposition -- Crystal Structure of TRIM21 in complex with Z165170770

• PDB DOI: https://doi.org/10.2210/pdb7HMM/pdb
• Deposition Group: G_1002320 (changed state) ExploreG_1002320

• Classification: LIGASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-11-04 Released: 2024-11-27 
• Deposition Author(s): Kim, Y., Marples, P., Fearon, D., von Delft, F., Knapp, S., Kraemer, A., Structural Genomics Consortium (SGC)
• Funding Organization(s): European Union (EU)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.28 Å
• R-Value Free: 
  0.199 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.202 (DCC) 
• R-Value Observed: 
  0.182 (Depositor) 

Starting Model: experimental

Literature

PanDDA analysis group deposition

Kim, Y., Marples, P., Fearon, D., von Delft, F., Knapp, S., Kraemer, A., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 21.97 kDa 
• Atom Count: 1,733 
• Modeled Residue Count: 185 
• Deposited Residue Count: 188 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase TRIM21	A [auth B]	188	Mus musculus	Mutation(s): 0  Gene Names: Trim21, Ro52, Ssa1 EC: 2.3.2.27
UniProt
Find proteins for Q62191 (Mus musculus) Explore Q62191  Go to UniProtKB:  Q62191

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
W0Y (Subject of Investigation/LOI)	B	N-methyl-4-sulfamoylbenzamide C8 H10 N2 O3 S CTDFBRMMEMHBEO-UHFFFAOYSA-N
SO4	D [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	C [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.28 Å
• R-Value Free:  0.199 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.202 (DCC) 
• R-Value Observed: 0.182 (Depositor) 

Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.548	α = 90
b = 95.548	β = 90
c = 45.794	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-27 
Deposition Author(s): Kim, Y., Marples, P., Fearon, D., von Delft, F., Knapp, S., Kraemer, A., Structural Genomics Consortium (SGC)

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Funding Organization	Location	Grant Number
European Union (EU)	European Union	875510

Revision History  

• Version 1.0: 2024-11-27
  Type: Initial release