Download MendeleyStructure of the human RAB39B in complex with GMPPNP
Diaz-Saez, L., Jung, S., Huber, K., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C.To be published.
6S5F
Structure of the human RAB39B in complex with GMPPNP
- PDB DOI: https://doi.org/10.2210/pdb6S5F/pdb
- Classification: STRUCTURAL GENOMICS
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2019-07-01 Released: 2020-07-22
- Funding Organization(s): Innovative Medicines Initiative
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.229
- R-Value Work: 0.184
- R-Value Observed: 0.186
This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ras-related protein Rab-39B | 208 | Homo sapiens | Mutation(s): 0 Gene Names: RAB39B |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q96DA2 (Homo sapiens) Explore Q96DA2 Go to UniProtKB: Q96DA2 | |||||
PHAROS: Q96DA2 GTEx: ENSG00000155961 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q96DA2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GNP (Subject of Investigation/LOI) Query on GNP | C [auth A] | PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER C10 H17 N6 O13 P3 UQABYHGXWYXDTK-UUOKFMHZSA-N |  | ||
| GLY Query on GLY | B [auth A] | GLYCINE C2 H5 N O2 DHMQDGOQFOQNFH-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | D [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| MG (Subject of Investigation/LOI) Query on MG | E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.229
- R-Value Work: 0.184
- R-Value Observed: 0.186
- Space Group: P 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 52.725 | α = 90 |
| b = 35.285 | β = 107.51 |
| c = 53.605 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| Aimless | data scaling |
| PDB_EXTRACT | data extraction |
| DIALS | data reduction |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-07-22 Deposition Author(s): Diaz-Saez, L., Jung, S., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Huber, K., Structural Genomics Consortium (SGC)
| Funding Organization | Location | Grant Number |
|---|---|---|
| Innovative Medicines Initiative | United Kingdom | -- |
Revision History (Full details and data files)
- Version 1.0: 2020-07-22
Type: Initial release - Version 1.1: 2024-01-24
Changes: Advisory, Data collection, Database references, Refinement description
