Download MendeleyCrystal structure of YPT31, a Rab family GTPase from Candida albicans, in complex with GDP and Zn(II)
Stogios, P.J.To be published.
5UB8
Crystal structure of YPT31, a Rab family GTPase from Candida albicans, in complex with GDP and Zn(II)
- PDB DOI: https://doi.org/10.2210/pdb5UB8/pdb
- Classification: PROTEIN BINDING
- Organism(s): Candida albicans SC5314
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2016-12-20 Released: 2017-01-11
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.35 Å
- R-Value Free: 0.226
- R-Value Work: 0.185
- R-Value Observed: 0.189
This is version 1.3 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 |
| Likely rab family GTP-binding protein | 222 | Candida albicans SC5314 | Mutation(s): 0 Gene Names: YPT31, CaO19.10153, CaO19.2622, orf19.2622 |  | |
UniProt | |||||
Find proteins for A0A1D8PTI2 (Candida albicans (strain SC5314 / ATCC MYA-2876)) Explore A0A1D8PTI2 Go to UniProtKB: A0A1D8PTI2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A1D8PTI2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GDP Query on GDP | B [auth A] | GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N |  | ||
| ZN Query on ZN | C [auth A], D [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.35 Å
- R-Value Free: 0.226
- R-Value Work: 0.185
- R-Value Observed: 0.189
- Space Group: C 1 2 1
- Diffraction Data: https://doi.org/10.18430/M35UB8
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 118.303 | α = 90 |
| b = 43.392 | β = 89.05 |
| c = 41.662 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| PHENIX | phasing |
| PHENIX | model building |
| Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2017-01-11 Deposition Author(s): Stogios, P.J., Skarina, T., Di Leo, R., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSCN27220120026C |
Revision History (Full details and data files)
- Version 1.0: 2017-01-11
Type: Initial release - Version 1.1: 2017-09-20
Changes: Author supporting evidence - Version 1.2: 2019-12-11
Changes: Author supporting evidence - Version 1.3: 2023-10-04
Changes: Data collection, Database references, Derived calculations, Refinement description
