Download MendeleyCrystal structure of a D-ribulose-5-phosphate-3-epimerase (NP_954699) from HOMO SAPIENS at 2.20 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3QC3
Crystal structure of a D-ribulose-5-phosphate-3-epimerase (NP_954699) from HOMO SAPIENS at 2.20 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3QC3/pdb
- Classification: ISOMERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2011-01-14 Released: 2011-03-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.211
- R-Value Work: 0.164
- R-Value Observed: 0.167
wwPDB Validation 3D Report Full Report
This is version 1.5 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 |
| D-ribulose-5-phosphate-3-epimerase | 225 | Homo sapiens | Mutation(s): 0 Gene Names: RPE, HUSSY-17 EC: 5.1.3.1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q96AT9 (Homo sapiens) Explore Q96AT9 Go to UniProtKB: Q96AT9 | |||||
PHAROS: Q96AT9 GTEx: ENSG00000197713 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q96AT9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | F [auth A], J [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| ZN Query on ZN | C [auth A], G [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| NI Query on NI | D [auth A], H [auth B] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |  | ||
| FE Query on FE | E [auth A], I [auth B] | FE (III) ION Fe VTLYFUHAOXGGBS-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: 2.20 Å
- R-Value Free: 0.211
- R-Value Work: 0.164
- R-Value Observed: 0.167
- Space Group: P 41
- Diffraction Data: https://doi.org/10.18430/M33QC3
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 47.665 | α = 90 |
| b = 47.665 | β = 90 |
| c = 220.774 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SHELX | phasing |
| REFMAC | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2011-03-09 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2011-03-09
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2011-07-20
Changes: Structure summary - Version 1.3: 2017-10-25
Changes: Author supporting evidence - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-10-09
Changes: Data collection, Refinement description, Structure summary
