Download MendeleyCrystal structure of a peptide deformylase from Legionella pneumophila
Edwards, T.E., Horanyi, P.S., Lorimer, D., Seattle Structural Genomics Center for Infectious Disease (SSGCID)To be published.
6CAZ
Crystal structure of a peptide deformylase from Legionella pneumophila
- PDB DOI: https://doi.org/10.2210/pdb6CAZ/pdb
- Classification: HYDROLASE
- Organism(s): Legionella pneumophila subsp. pneumophila str. Philadelphia 1
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2018-02-01 Released: 2018-02-14
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.193
- R-Value Work: 0.166
- R-Value Observed: 0.167
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 | 178 | Legionella pneumophila subsp. pneumophila str. Philadelphia 1 | Mutation(s): 0 Gene Names: def, lpg2595 EC: 3.5.1.88 |  | |
UniProt | |||||
Find proteins for Q5ZSC4 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)) Explore Q5ZSC4 Go to UniProtKB: Q5ZSC4 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q5ZSC4 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MES Query on MES | B [auth A] | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N |  | ||
| NI Query on NI | D [auth A] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |  | ||
| CL Query on CL | C [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.193
- R-Value Work: 0.166
- R-Value Observed: 0.167
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/M36CAZ
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 38.21 | α = 90 |
| b = 50.9 | β = 90 |
| c = 105.33 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XDS | data reduction |
| XSCALE | data scaling |
| PHASER | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Released Date: 2018-02-14 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2018-02-14
Type: Initial release - Version 1.1: 2023-10-04
Changes: Data collection, Database references, Refinement description
