3MJG
The structure of a platelet derived growth factor receptor complex
- PDB DOI: https://doi.org/10.2210/pdb3MJG/pdb
- Classification: Hormone/Transferase
- Organism(s): Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2010-04-12 Released: 2010-06-16 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.277 
- R-Value Work: 0.237 
- R-Value Observed: 0.237 
This is version 2.1 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 |
Platelet-derived growth factor subunit B | 172 | Homo sapiens | Mutation(s): 0  Gene Names: PDGF2, PDGFB, SIS | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01127 (Homo sapiens) Explore P01127  Go to UniProtKB:  P01127 | |||||
PHAROS:  P01127 GTEx:  ENSG00000100311  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01127 | ||||
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 |
Beta-type platelet-derived growth factor receptor | C [auth X], D [auth Y] | 289 | Homo sapiens | Mutation(s): 0  Gene Names: PDGFRB EC: 2.7.10.1 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P09619 (Homo sapiens) Explore P09619  Go to UniProtKB:  P09619 | |||||
PHAROS:  P09619 GTEx:  ENSG00000113721  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P09619 | ||||
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 | F [auth X] G [auth X] H [auth X] I [auth X] J [auth X] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
NDG Query on NDG | E [auth X] | 2-acetamido-2-deoxy-alpha-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-PVFLNQBWSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.277 
- R-Value Work: 0.237 
- R-Value Observed: 0.237 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 78.47 | α = 90 |
b = 116.82 | β = 90 |
c = 134.15 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
PHASER | phasing |
CNS | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
Entry History 
Deposition Data
- Released Date: 2010-06-16  Deposition Author(s): Shim, A.H.R., He, X.
Revision History (Full details and data files)
- Version 1.0: 2010-06-16
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-11-08
Changes: Source and taxonomy - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2023-09-06
Changes: Data collection, Database references, Refinement description, Structure summary