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Open data
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Basic information
Entry | Database: PDB / ID: 8pmu | ||||||
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Title | Crystal structure of the HC7 apo form | ||||||
![]() | DUF3472 domain-containing protein | ||||||
![]() | LYASE / Mucinase / glycoprotease / cluster of O-glycans | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Taleb, V. / Hurtado-Guerrero, R. | ||||||
Funding support | ![]()
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![]() | ![]() Title: A family of di-glutamate mucin-degrading enzymes that bridges glycan hydrolases and peptidases Authors: Narimatsu, Y. / Bull, C. / Taleb, V. / Liao, Q. / Companon, I. / Sanchez-Navarro, D. / Durbesson, F. / Vincentelli, R. / Hansen, L. / Corzana, F. / Rovira, C. / Henrissat, B. / Clausen, H. / ...Authors: Narimatsu, Y. / Bull, C. / Taleb, V. / Liao, Q. / Companon, I. / Sanchez-Navarro, D. / Durbesson, F. / Vincentelli, R. / Hansen, L. / Corzana, F. / Rovira, C. / Henrissat, B. / Clausen, H. / Joshi, H.J. / Hurtado-Guerrero, R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 91.3 KB | Display | ![]() |
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PDB format | ![]() | 64.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441 KB | Display | ![]() |
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Full document | ![]() | 443.1 KB | Display | |
Data in XML | ![]() | 15.4 KB | Display | |
Data in CIF | ![]() | 22 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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: 74217.211 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-GOL / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / Details: Lithium chloride Tris PEG 8000 |
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-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Jan 30, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 1.75→93.85 Å / Num. obs: 36731 / % possible obs: 91.9 % / Redundancy: 8.7 % / Rmerge(I) obs: 0.034 / Net I/σ(I): 11.5 |
Reflection shell | Resolution: 1.75→1.84 Å / Rmerge(I) obs: 1.209 / Num. unique obs: 5728 / CC1/2: 0.644 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: 30.438 Å2
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Refinement step | Cycle: 1 / Resolution: 1.75→66.36 Å
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Refine LS restraints |
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