4Q0Q
Crystal structure of Acinetobacter sp. DL28 L-ribose isomerase in complex with L-ribulose
- PDB DOI: https://doi.org/10.2210/pdb4Q0Q/pdb
- Classification: ISOMERASE
- Organism(s): Acinetobacter sp. DL-28
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2014-04-02 Released: 2014-05-28 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.93 Å
- R-Value Free: 0.246 
- R-Value Work: 0.209 
- R-Value Observed: 0.209 
This is version 1.4 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
L-Ribose isomerase | 260 | Acinetobacter sp. DL-28 | Mutation(s): 0  Gene Names: L-RI EC: 5.3.1 | ||
UniProt | |||||
Find proteins for Q93UQ5 (Acinetobacter sp. DL-28) Explore Q93UQ5  Go to UniProtKB:  Q93UQ5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q93UQ5 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NCO Query on NCO | K [auth A] | COBALT HEXAMMINE(III) Co H18 N6 DYLMFCCYOUSRTK-UHFFFAOYSA-N | |||
QDK Query on QDK | E [auth A] | L-ribulose C5 H10 O5 ZAQJHHRNXZUBTE-UCORVYFPSA-N | |||
RUU Query on RUU | C [auth A] D [auth A] F [auth A] G [auth A] H [auth A] | alpha-L-ribulofuranose C5 H10 O5 LQXVFWRQNMEDEE-VAYJURFESA-N | |||
CO Query on CO | B [auth A] | COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.93 Å
- R-Value Free: 0.246 
- R-Value Work: 0.209 
- R-Value Observed: 0.209 
- Space Group: F 2 2 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 95.42 | α = 90 |
b = 107.42 | β = 90 |
c = 118.12 | γ = 90 |
Software Name | Purpose |
---|---|
CrystalClear | data collection |
MOLREP | phasing |
CNS | refinement |
CrystalClear | data reduction |
CrystalClear | data scaling |
Entry History 
Deposition Data
- Released Date: 2014-05-28  Deposition Author(s): Yoshida, H., Yoshihara, A., Teraoka, M., Izumori, K., Kamitori, S.
Revision History (Full details and data files)
- Version 1.0: 2014-05-28
Type: Initial release - Version 1.1: 2014-06-11
Changes: Database references - Version 1.2: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations - Version 1.3: 2022-08-24
Changes: Database references, Structure summary - Version 1.4: 2023-11-08
Changes: Data collection, Refinement description