4QDH
Crystal Structure of the C-terminal Domain of Mouse TLR9
- PDB DOI: https://doi.org/10.2210/pdb4QDH/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Eptatretus burgeri, Mus musculus
- Expression System: Trichoplusia ni
- Mutation(s): No 
- Deposited: 2014-05-13 Released: 2014-06-11 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.247 
- R-Value Work: 0.214 
- R-Value Observed: 0.216 
This is version 1.5 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Variable lymphocyte receptor B, Toll-like receptor 9 chimera | 438 | Eptatretus burgeri, Mus musculus | Mutation(s): 0  Gene Names: Tlr9, VLRB | ||
UniProt | |||||
Find proteins for Q4G1L2 (Eptatretus burgeri) Explore Q4G1L2  Go to UniProtKB:  Q4G1L2 | |||||
Find proteins for Q9EQU3 (Mus musculus) Explore Q9EQU3  Go to UniProtKB:  Q9EQU3 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Groups | Q9EQU3Q4G1L2 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | C [auth A] D [auth A] E [auth A] F [auth A] G [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
SO4 Query on SO4 | H [auth A] I [auth A] J [auth A] K [auth A] Q [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.247 
- R-Value Work: 0.214 
- R-Value Observed: 0.216 
- Space Group: P 31 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 106.025 | α = 90 |
b = 106.025 | β = 90 |
c = 221.549 | γ = 120 |
Software Name | Purpose |
---|---|
Blu-Ice | data collection |
PHASER | phasing |
PHENIX | refinement |
XDS | data reduction |
XDS | data scaling |
Entry History 
Deposition Data
- Released Date: 2014-06-11  Deposition Author(s): Collins, B.C., Wilson, I.A.
Revision History (Full details and data files)
- Version 1.0: 2014-06-11
Type: Initial release - Version 1.1: 2014-07-02
Changes: Database references - Version 1.2: 2014-10-08
Changes: Database references - Version 1.3: 2017-07-26
Changes: Refinement description, Source and taxonomy - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.5: 2023-09-20
Changes: Data collection, Database references, Refinement description, Structure summary