Download MendeleyStructure of a putative ribokinase from Agrobacterium tumefaciens.
Cuff, M.E., Xu, X., Zheng, H., Edwards, A.M., Savchenko, A., Joachimiak, A.To be published.
2RBC
Crystal structure of a putative ribokinase from Agrobacterium tumefaciens
- PDB DOI: https://doi.org/10.2210/pdb2RBC/pdb
- Classification: TRANSFERASE
- Organism(s): Agrobacterium fabrum str. C58
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2007-09-18 Released: 2007-11-13
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.228
- R-Value Work: 0.188
- R-Value Observed: 0.190
wwPDB Validation 3D Report Full Report
This is version 1.2 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 |
| Sugar kinase | 343 | Agrobacterium fabrum str. C58 | Mutation(s): 0 Gene Names: RbsK, AGR_C_4560, Atu2509 EC: 2.7.1 |  | |
UniProt | |||||
Find proteins for A9CHQ7 (Agrobacterium fabrum (strain C58 / ATCC 33970)) Explore A9CHQ7 Go to UniProtKB: A9CHQ7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A9CHQ7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | B [auth A], C [auth A], D [auth A], E [auth A], F [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | M [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | H [auth A], I [auth A], J [auth A], K [auth A], L [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CL Query on CL | G [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.228
- R-Value Work: 0.188
- R-Value Observed: 0.190
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 81.024 | α = 90 |
| b = 81.024 | β = 90 |
| c = 139.799 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| MLPHARE | phasing |
| DM | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| SBC-Collect | data collection |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| HKL-3000 | phasing |
| SHELXD | phasing |
| SHELXE | model building |
| SOLVE | phasing |
| RESOLVE | phasing |
| ARP/wARP | model building |
| CCP4 | phasing |
| O | model building |
| Coot | model building |
Entry History
Deposition Data
- Released Date: 2007-11-13 Deposition Author(s): Cuff, M.E., Xu, X., Zheng, H., Edwards, A.M., Savchenko, A., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-11-13
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Source and taxonomy, Version format compliance - Version 1.2: 2017-10-25
Changes: Refinement description
