Download MendeleyCrystal structure of hypothetical protein (3258004) from Pyrococcus horikoshii at 2.04 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2G8L
Crystal structure of a duf89 family protein (ph1575) from pyrococcus horikoshii at 2.04 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2G8L/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Pyrococcus horikoshii
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2006-03-02 Released: 2006-03-21
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.04 Å
- R-Value Free: 0.182 (Depositor), 0.190 (DCC)
- R-Value Work: 0.144 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.146 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.5 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 |
| 287aa long hypothetical protein | 299 | Pyrococcus horikoshii | Mutation(s): 9 Gene Names: 3258004 EC: 3.1.3 |  | |
UniProt | |||||
Find proteins for O59272 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59272 Go to UniProtKB: O59272 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O59272 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | D [auth A], E [auth A], F [auth A], H [auth B], I [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| UNL Query on UNL | C [auth A], G [auth B] | Unknown ligand LYCAIKOWRPUZTN-UHFFFAOYSA-N | |||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.04 Å
- R-Value Free: 0.182 (Depositor), 0.190 (DCC)
- R-Value Work: 0.144 (Depositor), 0.160 (DCC)
- R-Value Observed: 0.146 (Depositor)
Diffraction Data: https://doi.org/10.18430/M32G8L
Space Group: P 31
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 88.859 | α = 90 |
| b = 88.859 | β = 90 |
| c = 81.499 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| SHELX | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2006-03-21 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2006-03-21
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.3: 2017-10-25
Changes: Author supporting evidence - Version 1.4: 2023-01-25
Changes: Database references, Derived calculations - Version 1.5: 2024-10-16
Changes: Data collection, Structure summary
