Download MendeleyCrystal structure of a putative kinase in the ribokinase-like superfamily from Enterococcus faecalis V583 (NP_815490.1) at 1.80 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2R3B
CRYSTAL STRUCTURE OF a ribokinase-like superfamily protein (EF1790) FROM ENTEROCOCCUS FAECALIS V583 AT 1.80 A RESOLUTION
- PDB DOI: https://doi.org/10.2210/pdb2R3B/pdb
- Classification: TRANSFERASE
- Organism(s): Enterococcus faecalis V583
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-08-29 Released: 2007-09-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.183
- R-Value Work: 0.150
- R-Value Observed: 0.152
wwPDB Validation 3D Report Full Report
This is version 1.4 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 |
| YjeF-related protein | 310 | Enterococcus faecalis V583 | Mutation(s): 0 Gene Names: NP_815490.1, EF_1790 |  | |
UniProt | |||||
Find proteins for Q833Y3 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q833Y3 Go to UniProtKB: Q833Y3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q833Y3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | E [auth A] F [auth A] G [auth A] K [auth B] L [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CL Query on CL | D [auth A], I [auth B], J [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| MG Query on MG | C [auth A], H [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.183
- R-Value Work: 0.150
- R-Value Observed: 0.152
- Space Group: C 2 2 21
- Diffraction Data: https://doi.org/10.18430/M32R3B
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 97.817 | α = 90 |
| b = 159.564 | β = 90 |
| c = 102.497 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| MOSFLM | data reduction |
| SHARP | phasing |
| SHELXD | phasing |
Entry History
Deposition Data
- Released Date: 2007-09-11 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-09-11
Type: Initial release - Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2023-01-25
Changes: Database references, Derived calculations
