Download MendeleyCrystal structure of putative serine protease YdgD from Escherichia coli
Stogios, P.J.To be published.
7UXG
Crystal structure of putative serine protease YdgD from Escherichia coli
- PDB DOI: https://doi.org/10.2210/pdb7UXG/pdb
- Classification: HYDROLASE
- Organism(s): Escherichia coli
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2022-05-05 Released: 2022-05-18
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.24 Å
- R-Value Free: 0.310
- R-Value Work: 0.258
- R-Value Observed: 0.261
wwPDB Validation 3D Report Full Report
This is version 1.1 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 |
| Serine protease | 273 | Escherichia coli | Mutation(s): 0 Gene Names: ydgD, ydgD_2, ACU57_22575, AWP93_25095, BANRA_00056, BJI68_03860, BJJ90_13150, BO068_000205, BON73_10185, BON74_16740... EC: 3.4.21 |  | |
UniProt | |||||
Find proteins for P76176 (Escherichia coli (strain K12)) Explore P76176 Go to UniProtKB: P76176 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P76176 | ||||
Sequence AnnotationsExpand | |||||
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Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.24 Å
- R-Value Free: 0.310
- R-Value Work: 0.258
- R-Value Observed: 0.261
- Space Group: P 65
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 98.145 | α = 90 |
| b = 98.145 | β = 90 |
| c = 43.441 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| PHENIX | phasing |
| PHENIX | model building |
| Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2022-05-18 Deposition Author(s): Stogios, P.J., Michalska, K., Skarina, T., Di Leo, R., Savchenko, A., Joachimiak, A., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSN272201700060C |
Revision History (Full details and data files)
- Version 1.0: 2022-05-18
Type: Initial release - Version 1.1: 2024-04-03
Changes: Data collection, Refinement description
