Download MendeleyStructure of nucleotide triphosphate pyrophosphatase from pyrococcus horikoshii OT3
Mizutani, H., Lokanath, N.K., Kunishima, N.To be published.
2E5X
Structure of nucleotide triphosphate pyrophosphatase from pyrococcus horikoshii OT3
- PDB DOI: https://doi.org/10.2210/pdb2E5X/pdb
- Classification: HYDROLASE
- Organism(s): Pyrococcus horikoshii OT3
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2006-12-25 Released: 2007-06-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.222
- R-Value Work: 0.196
- R-Value Observed: 0.196
Starting Model: experimental
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This is version 1.4 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 |
| Hypothetical protein PH1917 | 186 | Pyrococcus horikoshii OT3 | Mutation(s): 1 EC: 3.6.1.19 (PDB Primary Data), 3.6.1.66 (UniProt) |  | |
UniProt | |||||
Find proteins for O59580 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59580 Go to UniProtKB: O59580 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O59580 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ITT Query on ITT | E [auth A] | INOSINE 5'-TRIPHOSPHATE C10 H15 N4 O14 P3 HAEJPQIATWHALX-KQYNXXCUSA-N |  | ||
| EDO Query on EDO | F [auth A], G [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| NA Query on NA | B [auth A], C [auth A], D [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.222
- R-Value Work: 0.196
- R-Value Observed: 0.196
- Space Group: P 32 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.08 | α = 90 |
| b = 75.08 | β = 90 |
| c = 84.47 | γ = 120 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| HKL-2000 | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2007-06-26 Deposition Author(s): Mizutani, H., Lokanath, N.K., Kunishima, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Revision History (Full details and data files)
- Version 1.0: 2007-06-26
Type: Initial release - Version 1.1: 2008-04-30
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.3: 2021-11-10
Changes: Database references, Derived calculations - Version 1.4: 2023-10-25
Changes: Data collection, Refinement description
