+Open data
-Basic information
Entry | Database: PDB / ID: 4zzp | |||||||||
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Title | Dictyostelium purpureum cellobiohydrolase Cel7A apo structure | |||||||||
Components | CELLULOSE 1,4-BETA-CELLOBIOSIDASE | |||||||||
Keywords | HYDROLASE / GLYCOSIDE HYDROLASE / CELLOBIOHYDROLASE / CELLULASE | |||||||||
Function / homology | Function and homology information cellulose catabolic process / hydrolase activity, hydrolyzing O-glycosyl compounds Similarity search - Function | |||||||||
Biological species | DICTYOSTELIUM PURPUREUM (eukaryote) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | |||||||||
Authors | Momeni, M.H. / Hobdey, S.E. / Knott, B. / Beckham, G.T. / Stahlberg, J. | |||||||||
Citation | Journal: Appl.Environ.Microbiol. / Year: 2016 Title: Biochemical and Structural Characterization of Two Dictyostelium Cellobiohydrolases from the Amoebozoa Kingdom Reveal a High Conservation between Distant Phylogenetic Trees of Life. Authors: Hobdey, S.E. / Knott, B.C. / Haddad Momeni, M. / Taylor, L.E. / Borisova, A.S. / Podkaminer, K.K. / Vanderwall, T.A. / Himmel, M.E. / Decker, S.R. / Beckham, G.T. / Stahlberg, J. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4zzp.cif.gz | 173.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4zzp.ent.gz | 138.8 KB | Display | PDB format |
PDBx/mmJSON format | 4zzp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zz/4zzp ftp://data.pdbj.org/pub/pdb/validation_reports/zz/4zzp | HTTPS FTP |
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-Related structure data
Related structure data | 4zzqC 4d5jS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 47483.922 Da / Num. of mol.: 2 / Fragment: SECRETED ENZYME, RESIDUES 19-457 Source method: isolated from a genetically manipulated source Source: (gene. exp.) DICTYOSTELIUM PURPUREUM (eukaryote) / Plasmid: PTRENO / Production host: TRICHODERMA REESEI (fungus) / Strain (production host): QM6A / Variant (production host): AST 1116 References: UniProt: F0ZJZ1, cellulose 1,4-beta-cellobiosidase (reducing end) #2: Sugar | #3: Water | ChemComp-HOH / | Nonpolymer details | PYROGLUTAM | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.12 Å3/Da / Density % sol: 42 % / Description: NONE |
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Crystal grow | pH: 7 / Details: 0.1 M SODIUM MALONATE PH 7.0, 12% W/V PEG 3350. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID23-1 / Wavelength: 0.87 |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 18, 2014 / Details: SILICON TOROIDAL MIRROR |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.87 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→46.9 Å / Num. obs: 22787 / % possible obs: 99.9 % / Observed criterion σ(I): 2 / Redundancy: 6.6 % / Rmerge(I) obs: 0.25 / Net I/σ(I): 5.3 |
Reflection shell | Resolution: 2.7→2.85 Å / Redundancy: 6.3 % / Rmerge(I) obs: 0.5 / Mean I/σ(I) obs: 3.2 / % possible all: 99.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 4D5J Resolution: 2.7→84.25 Å / Cor.coef. Fo:Fc: 0.884 / Cor.coef. Fo:Fc free: 0.797 / SU B: 18.448 / SU ML: 0.382 / Cross valid method: THROUGHOUT / ESU R Free: 0.485 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 15.656 Å2
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Refinement step | Cycle: LAST / Resolution: 2.7→84.25 Å
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Refine LS restraints |
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