Download MendeleyCrystal structure of a Peptide Deformylase from Burkholderia multivorans
Potts, K.T., Abendroth, J., Lorimer, D.D., Edwards, T.E.To be published.
5J46
Crystal structure of a Peptide Deformylase from Burkholderia multivorans
- PDB DOI: https://doi.org/10.2210/pdb5J46/pdb
- Classification: HYDROLASE
- Organism(s): Burkholderia multivorans ATCC 17616
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2016-03-31 Released: 2016-04-13
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 Å
- R-Value Free: 0.207
- R-Value Work: 0.173
- R-Value Observed: 0.177
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 |
| Peptide deformylase | 189 | Burkholderia multivorans ATCC 17616 | Mutation(s): 0 Gene Names: def, BMULJ_00106 EC: 3.5.1.88 |  | |
UniProt | |||||
Find proteins for A0A0H3KB98 (Burkholderia multivorans (strain ATCC 17616 / 249)) Explore A0A0H3KB98 Go to UniProtKB: A0A0H3KB98 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0H3KB98 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ZN Query on ZN | B [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | C [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 Å
- R-Value Free: 0.207
- R-Value Work: 0.173
- R-Value Observed: 0.177
- Space Group: C 2 2 21
- Diffraction Data: https://doi.org/10.18430/M35J46
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 41.72 | α = 90 |
| b = 69.07 | β = 90 |
| c = 119.87 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| MOLREP | phasing |
| Coot | model building |
Entry History
Deposition Data
- Released Date: 2016-04-13 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2016-04-13
Type: Initial release - Version 1.1: 2023-09-27
Changes: Data collection, Database references, Derived calculations, Refinement description
