Download MendeleyCrystal structure of deoxyuridine 5-triphosphate nucleotidohydrolase from Brucella melitensis, orthorhombic crystal form
Abendroth, J., Sankaran, T., Gardberg, A., Staker, B.To be published.
3MBQ
Crystal structure of deoxyuridine 5-triphosphate nucleotidohydrolase from Brucella melitensis, orthorhombic crystal form
- PDB DOI: https://doi.org/10.2210/pdb3MBQ/pdb
- Classification: HYDROLASE
- Organism(s): Brucella abortus 2308
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2010-03-25 Released: 2010-04-21
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.208
- R-Value Work: 0.166
- R-Value Observed: 0.169
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 |
| Deoxyuridine 5'-triphosphate nucleotidohydrolase | 178 | Brucella abortus 2308 | Mutation(s): 0 Gene Names: dut, BAB1_1687 EC: 3.6.1.23 |  | |
UniProt | |||||
Find proteins for Q2YRG4 (Brucella abortus (strain 2308)) Explore Q2YRG4 Go to UniProtKB: Q2YRG4 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q2YRG4 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | D [auth A] E [auth A] J [auth B] N [auth C] O [auth C] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | I [auth A], R [auth C] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | F [auth A] G [auth A] H [auth A] K [auth B] L [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.208
- R-Value Work: 0.166
- R-Value Observed: 0.169
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/M33MBQ
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 50.56 | α = 90 |
| b = 95.89 | β = 90 |
| c = 100.35 | γ = 90 |
| Software Name | Purpose |
|---|---|
| BOS | data collection |
| PHASER | phasing |
| REFMAC | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
Entry History
Deposition Data
- Released Date: 2010-04-21 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2010-04-21
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Refinement description, Version format compliance - Version 1.2: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description
