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Open data
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Basic information
Entry | Database: PDB / ID: 7vt8 | ||||||
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Title | Crystal structure of MtGlu5 from Meiothermus taiwanensis WR-220 | ||||||
![]() | Endoglucanase H | ||||||
![]() | HYDROLASE / cellulase / GH5 / Meiothermus taiwanensis WR-220 / endo-beta-1 / 4-glucanase | ||||||
Function / homology | ![]() glucan catabolic process / cellulase / cellulase activity / beta-glucosidase activity / cell surface / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ye, T.J. / Ko, P.T. / Huang, K.F. / Wu, S.H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Synergic action of an inserted carbohydrate-binding module in a glycoside hydrolase family 5 endoglucanase. Authors: Ye, T.J. / Huang, K.F. / Ko, T.P. / Wu, S.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 194.7 KB | Display | ![]() |
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PDB format | ![]() | 156.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 2.9 MB | Display | ![]() |
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Full document | ![]() | 2.9 MB | Display | |
Data in XML | ![]() | 17.9 KB | Display | |
Data in CIF | ![]() | 23.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7vt4C ![]() 7vt5C ![]() 7vt6C ![]() 7vt7C ![]() 3mmuS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 52977.117 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: ![]() ![]() | ||||
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#2: Sugar | ChemComp-BGC / | ||||
#3: Chemical | ChemComp-SO4 / #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.9 Å3/Da / Density % sol: 74.88 % |
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Crystal grow | Temperature: 298 K / Method: microbatch Details: 0.16M citric acid, 1.1M ammonium sulfate, 10% PEG-400, pH 5.0 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX300-HS / Detector: CCD / Date: Apr 11, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.99→50 Å / Num. obs: 21603 / % possible obs: 99.8 % / Redundancy: 7.8 % / Rmerge(I) obs: 0.071 / Rpim(I) all: 0.027 / Rrim(I) all: 0.076 / Χ2: 0.781 / Net I/σ(I): 26.55 |
Reflection shell | Resolution: 2.99→3.04 Å / Num. unique obs: 1055 / CC1/2: 0.866 / Rpim(I) all: 0.439 / Χ2: 0.657 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3mmu Resolution: 2.99→29.21 Å / SU ML: 0.43 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 31.52 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 259.62 Å2 / Biso mean: 118.445 Å2 / Biso min: 47.66 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.99→29.21 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 8
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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