3S35
Structural basis for the function of two anti-VEGF receptor antibodies
- PDB DOI: https://doi.org/10.2210/pdb3S35/pdb
- Classification: IMMUNE SYSTEM/Transferase
- Organism(s): Mus musculus, Homo sapiens
- Expression System: Homo sapiens, Spodoptera frugiperda
- Mutation(s): No 
- Deposited: 2011-05-17 Released: 2011-08-24 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.259 
- R-Value Work: 0.203 
- R-Value Observed: 0.206 
This is version 2.1 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 |
6.64 Fab heavy chain | A [auth H] | 217 | Mus musculus, Homo sapiens This entity is chimeric | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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 |
6.64 Fab light chain | B [auth L] | 217 | Mus musculus, Homo sapiens This entity is chimeric | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Vascular endothelial growth factor receptor 2 | C [auth X] | 122 | Homo sapiens | Mutation(s): 0  Gene Names: KDR, FLK1 EC: 2.7.10.1 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P35968 (Homo sapiens) Explore P35968  Go to UniProtKB:  P35968 | |||||
PHAROS:  P35968 GTEx:  ENSG00000128052  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P35968 | ||||
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 | I [auth X] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
CA Query on CA | E [auth H] F [auth H] G [auth L] H [auth L] J [auth X] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.259 
- R-Value Work: 0.203 
- R-Value Observed: 0.206 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 78.937 | α = 90 |
b = 112.13 | β = 90 |
c = 156.971 | γ = 90 |
Software Name | Purpose |
---|---|
APS | data collection |
PHASER | phasing |
REFMAC | refinement |
MOSFLM | data reduction |
SCALA | data scaling |
Entry History 
Deposition Data
- Released Date: 2011-08-24  Deposition Author(s): Franklin, M.C.
Revision History (Full details and data files)
- Version 1.0: 2011-08-24
Type: Initial release - Version 1.1: 2017-11-08
Changes: Source and taxonomy - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2023-09-13
Changes: Data collection, Database references, Refinement description, Structure summary