8OUQ

Clr-11 from Rattus norvegicus

• PDB DOI: https://doi.org/10.2210/pdb8OUQ/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Rattus norvegicus
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2023-04-24 Released: 2024-05-01 
• Deposition Author(s): Skalova, T., Blaha, J., Kalouskova, B., Skorepa, O., Vanek, O., Dohnalek, J.
• Funding Organization(s): Czech Academy of Sciences, European Regional Development Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.235 
• R-Value Work: 0.190 

Starting Model: experimental

Literature

Clr-11 from Rattus norvegicus

Skalova, T., Blaha, J., Kalouskova, B., Skorepa, O., Vanek, O., Dohnalek, 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 and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 31.9 kDa 
• Atom Count: 2,410 
• Modelled Residue Count: 247 
• Deposited Residue Count: 266 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C-type lectin domain family 2 member D11	A [auth AAA], B [auth BBB]	133	Rattus norvegicus	Mutation(s): 1  Gene Names: Clec2d11, Clrb, Ocil
UniProt
Find proteins for Q0H8B9 (Rattus norvegicus) Explore Q0H8B9  Go to UniProtKB:  Q0H8B9
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: Q0H8B9-1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	C [auth AAA], D [auth BBB]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.235 
• R-Value Work: 0.190 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 30.863	α = 90
b = 69.346	β = 96.853
c = 62.473	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
BALBES	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-01 
Deposition Author(s): Skalova, T., Blaha, J., Kalouskova, B., Skorepa, O., Vanek, O., Dohnalek, J.

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Funding Organization	Location	Grant Number
Czech Academy of Sciences	Czech Republic	86652036
European Regional Development Fund	European Union	CZ.02.1.01/0.0/0.0/15_003/0000447

Revision History  

• Version 1.0: 2024-05-01
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Structure summary