Download MendeleyCrystal structure of Putative uncharacterized protein from Jonesia denitrificans
Chang, C., Volkart, L., Bearden, J., Wu, D., Eisen, J., Kerfeld, C., Joachimiak, A.To be published.
3LYD
Crystal structure of Putative uncharacterized protein from Jonesia denitrificans
- PDB DOI: https://doi.org/10.2210/pdb3LYD/pdb
- Classification: Structural Genomics, Unknown function
- Organism(s): Jonesia denitrificans DSM 20603
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2010-02-26 Released: 2010-03-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.45 Å
- R-Value Free: 0.192
- R-Value Work: 0.164
- R-Value Observed: 0.166
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 |
| Uncharacterized protein | 161 | Jonesia denitrificans DSM 20603 | Mutation(s): 0 Gene Names: Jden_0139 |  | |
UniProt | |||||
Find proteins for C7QYG7 (Jonesia denitrificans (strain ATCC 14870 / DSM 20603 / BCRC 15368 / CIP 55.134 / JCM 11481 / NBRC 15587 / NCTC 10816 / Prevot 55134)) Explore C7QYG7 Go to UniProtKB: C7QYG7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | C7QYG7 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | E [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| MG Query on MG | C [auth A], D [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-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: 1.45 Å
- R-Value Free: 0.192
- R-Value Work: 0.164
- R-Value Observed: 0.166
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 41.551 | α = 90 |
| b = 70.879 | β = 90 |
| c = 99.48 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SBC-Collect | data collection |
| HKL-3000 | phasing |
| SHELXD | phasing |
| SHELXE | model building |
| MLPHARE | phasing |
| DM | model building |
| RESOLVE | model building |
| Coot | model building |
| ARP/wARP | model building |
| REFMAC | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| DM | phasing |
| RESOLVE | phasing |
Entry History
Deposition Data
- Released Date: 2010-03-09 Deposition Author(s): Chang, C., Volkart, L., Bearden, J., Wu, D., Eisen, J., Kerfeld, C., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2010-03-09
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.2: 2017-11-08
Changes: Refinement description
