+Open data
-Basic information
Entry | Database: PDB / ID: 1ezk | ||||||
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Title | Crystal structure of recombinant tryparedoxin I | ||||||
Components | TRYPAREDOXIN I | ||||||
Keywords | ELECTRON TRANSPORT | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Crithidia fasciculata (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.9 Å | ||||||
Authors | Hofmann, B. / Guerrero, S.A. / Kalisz, H.M. / Menge, U. / Nogoceke, E. / Montemartini, M. / Singh, M. / Flohe, L. / Hecht, H.J. | ||||||
Citation | Journal: Biol.Chem. / Year: 2001 Title: Structures of tryparedoxins revealing interaction with trypanothione. Authors: Hofmann, B. / Budde, H. / Bruns, K. / Guerrero, S.A. / Kalisz, H.M. / Menge, U. / Montemartini, M. / Nogoceke, E. / Steinert, P. / Wissing, J.B. / Flohe, L. / Hecht, H.J. #1: Journal: Eur.J.Biochem. / Year: 1999 Title: Sequence, Heterologous Expression and Functional Characterization of Tryparedoxin I from Crithidias fasciculata | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ezk.cif.gz | 42.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ezk.ent.gz | 32.2 KB | Display | PDB format |
PDBx/mmJSON format | 1ezk.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ez/1ezk ftp://data.pdbj.org/pub/pdb/validation_reports/ez/1ezk | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 17438.588 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: C-TERMINAL HIS-TAG / Source: (gene. exp.) Crithidia fasciculata (eukaryote) / Strain: HS6 / Plasmid: PET22B / Production host: Escherichia coli (E. coli) / References: UniProt: O96438 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.15 Å3/Da / Density % sol: 42.82 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: PEG 4000, Tris, Mes, sodium acetate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 292K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 294 KDetails: Kalisz, H.M., (1998) Acta Crystallogr., Sect.D, 55, 696. pH: 8.7 | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: MPG/DESY, HAMBURG / Beamline: BW6 / Wavelength: 1.07 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Sep 13, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.07 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→27.5 Å / Num. all: 11980 / Num. obs: 11980 / % possible obs: 96.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.1 % / Biso Wilson estimate: 23.25 Å2 / Rmerge(I) obs: 0.079 / Net I/σ(I): 5.2 |
Reflection shell | Resolution: 1.9→2 Å / Redundancy: 2.8 % / Rmerge(I) obs: 0.128 / Num. unique all: 1417 / % possible all: 81.1 |
Reflection | *PLUS Rmerge(I) obs: 0.069 |
-Processing
Software |
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Refinement | Resolution: 1.9→50 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.9→50 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 1.9 Å / Lowest resolution: 50 Å / σ(F): 0 / Rfactor obs: 0.198 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |