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Yorodumi- PDB-4csi: Crystal structure of the thermostable Cellobiohydrolase Cel7A fro... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4csi | |||||||||
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Title | Crystal structure of the thermostable Cellobiohydrolase Cel7A from the fungus Humicola grisea var. thermoidea. | |||||||||
Components | CELLULASE | |||||||||
Keywords | HYDROLASE / GLYCOSIDE HYDROLASE | |||||||||
Function / homology | Function and homology information cellulose 1,4-beta-cellobiosidase (non-reducing end) / cellulose 1,4-beta-cellobiosidase activity / Hydrolases; Glycosylases; Glycosidases, i.e. enzymes that hydrolyse O- and S-glycosyl compounds / cellulose binding / cellulose catabolic process / hydrolase activity, hydrolyzing O-glycosyl compounds / extracellular region Similarity search - Function | |||||||||
Biological species | HUMICOLA GRISEA VAR. THERMOIDEA (fungus) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | |||||||||
Authors | Haddad-Momeni, M. / Goedegebuur, F. / Hansson, H. / Karkehabadi, S. / Askarieh, G. / Mitchinson, C. / Larenas, E. / Stahlberg, J. / Sandgren, M. | |||||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2014 Title: Expression, Crystal Structure and Cellulase Activity of the Thermostable Cellobiohydrolase Cel7A from the Fungus Humicola Grisea Var. Thermoidea. Authors: Haddad-Momeni, M. / Goedegebuur, F. / Hansson, H. / Karkehabadi, S. / Askarieh, G. / Mitchinson, C. / Larenas, E. / Stahlberg, J. / Sandgren, M. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4csi.cif.gz | 192.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4csi.ent.gz | 152.1 KB | Display | PDB format |
PDBx/mmJSON format | 4csi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cs/4csi ftp://data.pdbj.org/pub/pdb/validation_reports/cs/4csi | HTTPS FTP |
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-Related structure data
Related structure data | 1celS 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: 47113.938 Da / Num. of mol.: 2 / Fragment: CATALYTIC MODULE, RESIDUES 19-457 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HUMICOLA GRISEA VAR. THERMOIDEA (fungus) Plasmid: PTREX2G / Production host: HYPOCREA JECORINA (fungus) References: UniProt: Q12621, UniProt: P15828*PLUS, cellulose 1,4-beta-cellobiosidase (reducing end) #2: Sugar | #3: Chemical | #4: Water | ChemComp-HOH / | Nonpolymer details | N-ACETYL-D-GLUCOSAMIN | Sequence details | THE ISOLATED GENE HAS HISTIDINE H WHEREAS Q12621 HAS TYROSINE Y AT POSITION 101 | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 1.78 Å3/Da / Density % sol: 31 % / Description: NONE |
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Crystal grow | pH: 6 Details: PROTEIN WAS CRYSTALLIZED FROM 22 % (W/V) PEG 8000, 0.2 M AMMONIUM SULPHATE, 20 MM TRIS HCL, PH 7.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.934 |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Dec 1, 2004 / Details: MIRRORS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.934 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→34.7 Å / Num. obs: 65221 / % possible obs: 99.8 % / Observed criterion σ(I): 2 / Redundancy: 3.9 % / Rmerge(I) obs: 0.09 / Net I/σ(I): 7.1 |
Reflection shell | Resolution: 1.8→1.9 Å / Redundancy: 3.8 % / Rmerge(I) obs: 0.41 / Mean I/σ(I) obs: 2.68 / % possible all: 99.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1CEL Resolution: 1.8→72.32 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.938 / SU B: 2.878 / SU ML: 0.089 / Cross valid method: THROUGHOUT / ESU R: 0.144 / ESU R Free: 0.133 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. RESIDUES 193-200 ARE DISORDERED IN CHAIN B, RESIDUES 438 AND 439 ARE DISORDERED IN CHAIN A, AND NOT PRESENT IN THE FINAL MODEL
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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: 17.6 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→72.32 Å
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Refine LS restraints |
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