Download MendeleyCrystal structure of hypothetical protein MJ_1460 (1592102) from Methanococcus jannaschii at 2.30 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
2OSD | pdb_00002osd
Crystal structure of a vinyl-4-reductase family protein (mj_1460) from methanocaldococcus jannaschii dsm at 2.40 A resolution
- PDB DOI: https://doi.org/10.2210/pdb2OSD/pdb
- Classification: METAL BINDING PROTEIN
- Organism(s): Methanocaldococcus jannaschii DSM 2661
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2007-02-05 Released: 2007-02-20
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.242 (Depositor), 0.250 (DCC)
- R-Value Work: 0.219 (Depositor), 0.230 (DCC)
- R-Value Observed: 0.221 (Depositor)
wwPDB Validation 3D Report Full Report
This is version 1.6 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 MJ1460 | 163 | Methanocaldococcus jannaschii DSM 2661 | Mutation(s): 8 Gene Names: 1592102, MJ1460 |  | |
UniProt | |||||
Find proteins for Q58855 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q58855 Go to UniProtKB: Q58855 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q58855 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ZN Query on ZN | E [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | F [auth A], G [auth A], H [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CA Query on CA | B [auth A], C [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| CL Query on CL | D [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.242 (Depositor), 0.250 (DCC)
- R-Value Work: 0.219 (Depositor), 0.230 (DCC)
- R-Value Observed: 0.221 (Depositor)
Diffraction Data: https://doi.org/10.18430/M32OSD
Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 55.786 | α = 90 |
| b = 55.786 | β = 90 |
| c = 118.99 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MolProbity | model building |
| SHELX | phasing |
| REFMAC | refinement |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| MOSFLM | data reduction |
| CCP4 | data scaling |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2007-02-20 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-02-20
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2021-10-20
Changes: Database references, Derived calculations - Version 1.5: 2023-01-25
Changes: Database references - Version 1.6: 2024-11-13
Changes: Data collection, Structure summary
