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- PDB-1e5j: ENDOGLUCANASE CEL5A FROM BACILLUS AGARADHAERENS IN THE TETRAGONAL... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1e5j | |||||||||
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Title | ENDOGLUCANASE CEL5A FROM BACILLUS AGARADHAERENS IN THE TETRAGONAL CRYSTAL FORM IN COMPLEX WITH METHYL-4II-S-ALPHA-CELLOBIOSYL-4II-THIO-BETA-CELLOBIOSIDE | |||||||||
![]() | ENDOGLUCANASE 5A | |||||||||
![]() | HYDROLASE / CELLULOSE DEGRADATION / GLYCOSHYDROLASE FAMILY 5 | |||||||||
Function / homology | ![]() cellulase / cellulase activity / cellulose catabolic process / carbohydrate binding / extracellular region Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() | |||||||||
![]() | Fort, S. / Varrot, A. / Schulein, M. / Cottaz, S. / Driguez, H. / Davies, G.J. | |||||||||
![]() | ![]() Title: Mixed-Linkage Cellooligosaccharides: A New Class of Glycoside Hydrolase Inhibitors Authors: Fort, S. / Varrot, A. / Schulein, M. / Cottaz, S. / Driguez, H. / Davies, G.J. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 84.4 KB | Display | ![]() |
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PDB format | ![]() | 62.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 714.7 KB | Display | ![]() |
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Full document | ![]() | 716.6 KB | Display | |
Data in XML | ![]() | 17.1 KB | Display | |
Data in CIF | ![]() | 26 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 34156.180 Da / Num. of mol.: 1 / Fragment: CATALYTIC CORE DOMAIN, RESIDUES 27-331 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||||
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#2: Polysaccharide | alpha-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)- ...alpha-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-methyl beta-D-glucopyranoside Type: oligosaccharide / Mass: 712.734 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source | ||||||
#3: Chemical | ChemComp-CA / #4: Water | ChemComp-HOH / | Compound details | CATALYTIC ACTIVITY: ENDOHYDROLYSIS OF 1,4-BETA-D-GLUCOSIDIC LINKAGES IN CELLULOSE. SIMILARITY: ...CATALYTIC ACTIVITY: ENDOHYDROL | Sequence details | THE 26 FIRST RESIDUES ARE CLEAVED IN ORDER TO GET THE MATURE PROTEIN. THE REAL NUMBERING BEGINS AT ...THE 26 FIRST RESIDUES ARE CLEAVED IN ORDER TO GET THE MATURE PROTEIN. THE REAL NUMBERING BEGINS AT RESIDUE 27 WHICH IS 1 IN THIS ENTRY. THE FIRST 3 RESIDUES OF THE CORE ARE TOO DISORDERED | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.1 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 7 Details: PROTEIN (20MGML-1) WAS CRYSTALLISED FROM 28% PEG400 AS PRECIPITANT, 100MM HEPES AT PH 7.0 AS BUFFER AND 200 MM CACL2. THE PROTEIN WAS INCUBATED WITH THE 1MM OF SUBSTRATE FOR AN HOUR PRIOR TO COCRYSTALLISATIOM | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 100 K / pH: 7 / Method: vapor diffusion, hanging drop / Details: Varrot, A., (2000) J.Mol.Biol., 279, 819. | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jan 13, 2000 / Details: LONG MIRRORS (MSC) |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→15 Å / Num. obs: 32666 / % possible obs: 98.7 % / Redundancy: 3 % / Biso Wilson estimate: 23.32 Å2 / Rmerge(I) obs: 0.048 / Rsym value: 0.048 / Net I/σ(I): 19.8 |
Reflection shell | Resolution: 1.85→1.92 Å / Redundancy: 3 % / Rmerge(I) obs: 0.265 / Mean I/σ(I) obs: 3.7 / Rsym value: 0.265 / % possible all: 96.5 |
Reflection | *PLUS Lowest resolution: 15 Å / Redundancy: 3 % |
Reflection shell | *PLUS % possible obs: 96.5 % / Redundancy: 3 % / Mean I/σ(I) obs: 3.7 |
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Processing
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Refinement | Method to determine structure: OTHER / Resolution: 1.85→15 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 23.14 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.85→15 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.177 / Rfactor Rfree: 0.221 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: p_angle_d / Dev ideal: 0.023 |