Download MendeleyCrystal structure of Methanococcus jannaschii inorganic pyrophosphatase
Shimada, A., Kuramitsu, S., Yokoyama, S.To be published.
2EB0
Crystal structure of Methanococcus jannaschii putative family II inorganic pyrophosphatase
- PDB DOI: https://doi.org/10.2210/pdb2EB0/pdb
- Classification: HYDROLASE
- Organism(s): Methanocaldococcus jannaschii DSM 2661
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-02-05 Released: 2007-08-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.271
- R-Value Work: 0.205
- R-Value Observed: 0.205
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 |
| Manganese-dependent inorganic pyrophosphatase | 307 | Methanocaldococcus jannaschii DSM 2661 | Mutation(s): 0 Gene Names: MJ0608 EC: 3.6.1.1 |  | |
UniProt | |||||
Find proteins for Q58025 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q58025 Go to UniProtKB: Q58025 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q58025 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MN Query on MN | C [auth A], D [auth A], E [auth B], F [auth B] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.271
- R-Value Work: 0.205
- R-Value Observed: 0.205
- Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 72.843 | α = 90 |
| b = 146.761 | β = 90 |
| c = 54.286 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| HKL-2000 | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| CNS | phasing |
Entry History
Deposition Data
- Released Date: 2007-08-07 Deposition Author(s): Shimada, A., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Revision History (Full details and data files)
- Version 1.0: 2007-08-07
Type: Initial release - Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.2: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description
