5F88
Cetuximab Fab in complex with L5Y meditope variant
- PDB DOI: https://doi.org/10.2210/pdb5F88/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Mus musculus, Homo sapiens, synthetic construct
- Expression System: unidentified
- Mutation(s): No 
- Deposited: 2015-12-09 Released: 2016-10-26 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.48 Å
- R-Value Free: 0.216 
- R-Value Work: 0.163 
- R-Value Observed: 0.165 
This is version 1.4 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 |
Cetuximab Fab light chain | 213 | Mus musculus, Homo sapiens This entity is chimeric | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Cetuximab Fab heavy chain | 220 | Mus musculus, Homo sapiens This entity is chimeric | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
L5Y meditope | 12 | synthetic construct | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | I [auth B], K [auth D] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PO4 Query on PO4 | G [auth A], H [auth A], J [auth C], L [auth D] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.48 Å
- R-Value Free: 0.216 
- R-Value Work: 0.163 
- R-Value Observed: 0.165 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 64.24 | α = 90 |
b = 83.14 | β = 90 |
c = 211.94 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
XDS | data reduction |
XSCALE | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2016-10-26  Deposition Author(s): Bzymek, K.P., Williams, J.C.
Revision History (Full details and data files)
- Version 1.0: 2016-10-26
Type: Initial release - Version 1.1: 2016-11-09
Changes: Database references - Version 1.2: 2017-12-13
Changes: Database references, Derived calculations - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2023-09-27
Changes: Data collection, Database references, Refinement description, Structure summary