Download MendeleyCrystal Structure of D-alanine Carboxypeptidase AmpC from Mycobacterium smegmatis
Kim, Y., Hatzos-Skintges, C., Endres, M., Babnigg, G., Joachimiak, A.To be published.
5E2H
Crystal Structure of D-alanine Carboxypeptidase AmpC from Mycobacterium smegmatis
- DOI: 10.2210/pdb5E2H/pdb
- Classification: HYDROLASE
- Organism(s): Mycolicibacterium smegmatis MC2 155
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2015-10-01 Released: 2015-10-14
- Funding Organization(s): National Institutes of Health
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.197
- R-Value Work: 0.164
- R-Value Observed: 0.165
wwPDB Validation 3D Report Full Report
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Beta-lactamase | A, B, C | 357 | Mycolicibacterium smegmatis MC2 155 | Mutation(s): 0 Gene Names: MSMEG_3978 EC: 3.5.2.6 |  |
Find proteins for A0QZC8 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0QZC8 Go to UniProtKB: A0QZC8 | |||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | C | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| CL Query on CL | A, B, C | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A,B,C | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.197
- R-Value Work: 0.164
- R-Value Observed: 0.165
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 127.779 | α = 90 |
| b = 73.682 | β = 90.19 |
| c = 113.413 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data scaling |
| HKL-3000 | phasing |
| SBC-Collect | data collection |
Entry History & Funding Information
Deposition Data
- Deposited Date: 2015-10-01
- Released Date: 2015-10-14 Deposition Author(s): Kim, Y., Hatzos-Skintges, C., Endres, M., Babnigg, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health | United States | -- |
