Download MendeleyCrystal structure of Nucleoside diphosphate kinase B from Trypanosoma brucei, apo form
Seattle Structural Genomics Center for Infectious Disease (SSGCID), Gardberg, A.S., Edwards, T.E., Staker, B., Stewart, L.To be published.
4F36
Crystal structure of Nucleoside diphosphate kinase B from Trypanosoma brucei, apo form
- PDB DOI: https://doi.org/10.2210/pdb4F36/pdb
- Classification: TRANSFERASE
- Organism(s): Trypanosoma brucei brucei TREU927
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2012-05-08 Released: 2012-05-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 ?
- R-Value Free: 0.235
- R-Value Work: 0.198
- R-Value Observed: 0.200
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
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 |
| Nucleoside diphosphate kinase | 157 | Trypanosoma brucei brucei TREU927 | Mutation(s): 0 Gene Names: Tb11.01.7800 EC: 2.7.4.6 |  | |
UniProt | |||||
Find proteins for Q381H3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1)) Explore Q381H3 Go to UniProtKB: Q381H3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q381H3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SCN Query on SCN | G [auth F] | THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 ?
- R-Value Free: 0.235
- R-Value Work: 0.198
- R-Value Observed: 0.200
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/M34F36
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 52.46 | ¦Á = 90 |
| b = 123.67 | ¦Â = 90 |
| c = 145.36 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHASER | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
Entry History
Deposition Data
- Released Date: 2012-05-16 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2012-05-16
Type: Initial release - Version 1.1: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
