Download MendeleyCrystal structure of hypothetical protein MJ0408 from Methanococcus jannaschii
Ramagopal, U.A., Toro, R., Sauder, J.M., Burley, S.K., Almo, S.C.To be published.
2OGF
Crystal structure of protein MJ0408 from Methanococcus jannaschii, Pfam DUF372
- PDB DOI: https://doi.org/10.2210/pdb2OGF/pdb
- Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
- Organism(s): Methanocaldococcus jannaschii
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2007-01-05 Released: 2007-01-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.224
- R-Value Work: 0.173
- R-Value Observed: 0.175
This is version 1.7 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 MJ0408 | 122 | Methanocaldococcus jannaschii | Mutation(s): 3 Gene Names: MJ0408 |  | |
UniProt | |||||
Find proteins for Q57851 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q57851 Go to UniProtKB: Q57851 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q57851 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| OXG Query on OXG | E [auth A], F [auth A], H [auth B], L [auth D] | 8-OXOGUANINE C5 H3 N5 O2 UBKVUFQGVWHZIR-UHFFFAOYSA-N |  | ||
| SO4 Query on SO4 | G [auth B], K [auth D] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | I [auth C], J [auth C] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.224
- R-Value Work: 0.173
- R-Value Observed: 0.175
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.693 | α = 90 |
| b = 46.27 | β = 118.54 |
| c = 79.276 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data reduction |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2007-01-16 Deposition Author(s): Ramagopal, U.A., Toro, R., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)
Revision History (Full details and data files)
- Version 1.0: 2007-01-16
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2018-11-14
Changes: Data collection, Structure summary - Version 1.5: 2021-02-03
Changes: Database references, Derived calculations, Structure summary - Version 1.6: 2023-08-30
Changes: Data collection, Database references, Refinement description - Version 1.7: 2023-11-15
Changes: Data collection
