Download MendeleyPeptide deformylase from Vibrio cholerae.
Osipiuk, J., Mulligan, R., Papazisi, L., Anderson, W.F., Joachimiak, A.To be published.
3QU1
Peptide deformylase from Vibrio cholerae
- PDB DOI: https://doi.org/10.2210/pdb3QU1/pdb
- Classification: HYDROLASE, METAL BINDING PROTEIN
- Organism(s): Vibrio cholerae
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2011-02-23 Released: 2011-03-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.204
- R-Value Work: 0.167
- R-Value Observed: 0.169
wwPDB Validation 3D Report Full Report
This is version 1.3 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 2 | 171 | Vibrio cholerae | Mutation(s): 0 Gene Names: def, def2, VC_A0150 EC: 3.5.1.88 |  | |
UniProt | |||||
Find proteins for Q9KN16 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)) Explore Q9KN16 Go to UniProtKB: Q9KN16 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9KN16 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | L [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| ZN Query on ZN | C [auth A] D [auth A] E [auth A] F [auth A] H [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| CL Query on CL | G [auth A], K [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.204
- R-Value Work: 0.167
- R-Value Observed: 0.169
- Space Group: P 41 21 2
- Diffraction Data: https://doi.org/10.18430/M33QU1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 74.296 | α = 90 |
| b = 74.296 | β = 90 |
| c = 127.219 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| SBC-Collect | data collection |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| MOLREP | phasing |
| HKL-3000 | phasing |
Entry History
Deposition Data
- Released Date: 2011-03-09 Deposition Author(s): Osipiuk, J., Mulligan, R., Papazisi, L., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
Revision History (Full details and data files)
- Version 1.0: 2011-03-09
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-11-08
Changes: Refinement description - Version 1.3: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
