6RPJ
A Non-blocking anti-CTLA-4 Nanobody complexed with CTLA-4
- PDB DOI: https://doi.org/10.2210/pdb6RPJ/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Homo sapiens, Camelus bactrianus
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2019-05-14 Released: 2020-07-08 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.25 Å
- R-Value Free: 0.262 
- R-Value Work: 0.249 
- R-Value Observed: 0.249 
This is version 3.0 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Cytotoxic T-lymphocyte protein 4 | 129 | Homo sapiens | Mutation(s): 0  Gene Names: CTLA4, CD152 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P16410 (Homo sapiens) Explore P16410  Go to UniProtKB:  P16410 | |||||
PHAROS:  P16410 GTEx:  ENSG00000163599  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P16410 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
A non-blocking CTLA-4 nanobody | 142 | Camelus bactrianus | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | L [auth C], M [auth C], N [auth E], P [auth G] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
NA Query on NA | O [auth E], Q [auth G] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.25 Å
- R-Value Free: 0.262 
- R-Value Work: 0.249 
- R-Value Observed: 0.249 
- Space Group: C 1 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 309.977 | α = 90 |
b = 75.708 | β = 100.05 |
c = 83.047 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
Revision History (Full details and data files)
- Version 1.0: 2020-07-08
Type: Initial release - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Refinement description, Structure summary - Version 3.0: 2020-11-11
Changes: Atomic model, Data collection, Derived calculations, Structure summary