Download MendeleySubstrate recognition by an amidase of the nitrilase superfamily
Kimani, S.W., Venter, G.A., Sewell, B.T.To be published.
5NYE
A C145A mutant of Nesterenkonia AN1 amidase bound to propionamide
- PDB DOI: https://doi.org/10.2210/pdb5NYE/pdb
- Classification: HYDROLASE
- Organism(s): Nesterenkonia sp. 10004
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2017-05-11 Released: 2018-05-30
- Funding Organization(s): National Research Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.55 Å
- R-Value Free: 0.167
- R-Value Work: 0.143
- R-Value Observed: 0.144
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 |
| Amidase | 283 | Nesterenkonia sp. 10004 | Mutation(s): 1 Gene Names: Nit2 EC: 3.5.1.4 |  | |
UniProt | |||||
Find proteins for D0VWZ1 (Nesterenkonia sp. 10004) Explore D0VWZ1 Go to UniProtKB: D0VWZ1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | D0VWZ1 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PEG Query on PEG | B [auth A], C [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| ROP Query on ROP | D [auth A], E [auth A] | PROPIONAMIDE C3 H7 N O QLNJFJADRCOGBJ-UHFFFAOYSA-N |  | ||
| CL Query on CL | F [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.55 Å
- R-Value Free: 0.167
- R-Value Work: 0.143
- R-Value Observed: 0.144
- Space Group: C 2 2 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.102 | α = 90 |
| b = 115.306 | β = 90 |
| c = 65.348 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| SCALA | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2018-05-30 Deposition Author(s): Kimani, S.W., Sewell, B.T.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Research Foundation | South Africa | 91532 |
Revision History (Full details and data files)
- Version 1.0: 2018-05-30
Type: Initial release - Version 1.1: 2024-01-17
Changes: Data collection, Database references, Refinement description
