3A6T
Crystal structure of MutT-8-OXO-DGMP complex
- PDB DOI: https://doi.org/10.2210/pdb3A6T/pdb
- Classification: HYDROLASE
- Organism(s): Escherichia coli K-12
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2009-09-09 Released: 2009-10-27
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.96 Å
- R-Value Free: 0.201
- R-Value Work: 0.178
- R-Value Observed: 0.178
This is version 2.1 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 |
| Mutator mutT protein | 129 | Escherichia coli K-12 | Mutation(s): 0 Gene Names: mutT EC: 3.6.1 |  | |
UniProt | |||||
Find proteins for P08337 (Escherichia coli (strain K12)) Explore P08337 Go to UniProtKB: P08337 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P08337 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 8OG Query on 8OG | F [auth A] | 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE C10 H14 N5 O8 P AQIVLFLYHYFRKU-VPENINKCSA-N |  | ||
| SO4 Query on SO4 | D [auth A], E [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| NA Query on NA | C [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900003 Query on PRD_900003 | B | sucrose | Oligosaccharide / Nutrient |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.96 Å
- R-Value Free: 0.201
- R-Value Work: 0.178
- R-Value Observed: 0.178
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 37.972 | α = 90 |
| b = 56.007 | β = 90 |
| c = 59.369 | γ = 90 |
| Software Name | Purpose |
|---|---|
| AMoRE | phasing |
| CNS | refinement |
| HKL-2000 | data reduction |
| SCALEPACK | data scaling |
Entry History
Deposition Data
- Released Date: 2009-10-27 Deposition Author(s): Nakamura, T., Yamagata, Y.
Revision History (Full details and data files)
- Version 1.0: 2009-10-27
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2023-11-01
Changes: Data collection, Database references, Refinement description, Structure summary
