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3KH4|pdb_00003kh4
Crystal structure of human Cu/Zn superoxide dismutase recombinantly produced in Leishmania tarantolae; P6522 crystal form containing 6 chains in the asymmetric unit
- PDB DOI: https://doi.org/10.2210/pdb3KH4/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Homo sapiens
- Expression System: Leishmania tarentolae
- Mutation(s): No
- Deposited: 2009-10-30 Released: 2010-08-11
- Deposition Author(s): Gazdag, E.M.,Blankenfeldt, W.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.50 Å
- R-Value Free: 0.208 (Depositor), 0.200 (DCC)
- R-Value Work: 0.201 (Depositor), 0.186 (DCC)
- R-Value Observed: 0.201 (Depositor)
wwPDB Validation 3D Report Full Report
Download MendeleyPurification and crystallization of human Cu/Zn superoxide dismutase recombinantly produced in the protozoan Leishmania tarentolae.
Gazdag, E.M., Cirstea, I.C., Breitling, R., Lukes, J., Blankenfeldt, W., Alexandrov, K.(2010) Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 871-877
- PubMed: 20693657 Search on PubMedSearch on PubMed Central
- DOI: https://doi.org/10.1107/S1744309110019330
- Primary Citation of Related Structures:
3KH3,3KH4 - PubMed Abstract:
The rapid and inexpensive production of high-quality eukaryotic proteins in recombinant form still remains a challenge in structural biology. Here, a protein-expression system based on the protozoan Leishmania tarentolae was used to produce human Cu/Zn superoxide dismutase (SOD1) in recombinant form. Sequential integration of the SOD1 expression cassettes was demonstrated to lead to a linear increase in expression levels to up to 30 mg per litre. Chromatographic purification resulted in 90% pure recombinant protein, with a final yield of 6.5 mg per litre of culture. The protein was crystallized and the structures of two new crystal forms were determined. These results demonstrate the suitability of the L. tarentolae expression system for structural research.
- Department of Physical Biochemistry, Max-Planck-Institute for Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany.
Organizational Affiliation:
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (ZN)
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (ZN)
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 2 assigned by authors and generated by PISA (software)
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (ZN)
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 3 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 95.74 kDa
- Atom Count: 6,672
- Modeled Residue Count: 918
- Deposited Residue Count: 918
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Superoxide dismutase [Cu-Zn] | 153 | Homo sapiens | Mutation(s): 0 Gene Names: SOD1 EC: 1.15.1.1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P00441 (Homo sapiens) Explore P00441 Go to UniProtKB: P00441 | |||||
PHAROS: P00441 GTEx: ENSG00000142168 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P00441 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.50 Å
- R-Value Free: 0.208 (Depositor), 0.200 (DCC)
- R-Value Work: 0.201 (Depositor), 0.186 (DCC)
- R-Value Observed: 0.201 (Depositor)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 112.188 | α = 90 |
| b = 112.188 | β = 90 |
| c = 428.268 | γ = 120 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
Deposition Data
- Released Date: 2010-08-11 Deposition Author(s): Gazdag, E.M.,Blankenfeldt, W.
Revision History (Full details and data files)
- Version 1.0: 2010-08-11
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary
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RCSB PDB Core Operations are funded by theU.S. National Science Foundation (DBI-2321666), theUS Department of Energy (DE-SC0019749), and theNational Cancer Institute,National Institute of Allergy and Infectious Diseases, andNational Institute of General Medical Sciences of theNational Institutes of Health under grant R01GM157729.