+Open data
-Basic information
Entry | Database: PDB / ID: 3h6q | ||||||
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Title | Macrocypin, a beta-trefoil cysteine protease inhibitor | ||||||
Components | Macrocypin 1a | ||||||
Keywords | HYDROLASE/HYDROLASE INHIBITOR / Macrocypin / mycocypin / cysteine protease inhibitor / Kunitz type inhibitor / beta trefoil / HYDROLASE-HYDROLASE INHIBITOR complex | ||||||
Function / homology | cysteine-type endopeptidase inhibitor activity / Trefoil (Acidic Fibroblast Growth Factor, subunit A) - #50 / Trefoil (Acidic Fibroblast Growth Factor, subunit A) / Trefoil / Mainly Beta / Macrocypin-1a Function and homology information | ||||||
Biological species | Macrolepiota procera (parasol mushroom) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.643 Å | ||||||
Authors | Renko, M. / Sabotic, J. / Brzin, J. / Turk, D. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2010 Title: Versatile loops in mycocypins inhibit three protease families. Authors: Renko, M. / Sabotic, J. / Mihelic, M. / Brzin, J. / Kos, J. / Turk, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3h6q.cif.gz | 55.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3h6q.ent.gz | 40.2 KB | Display | PDB format |
PDBx/mmJSON format | 3h6q.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3h6q_validation.pdf.gz | 425 KB | Display | wwPDB validaton report |
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Full document | 3h6q_full_validation.pdf.gz | 428.6 KB | Display | |
Data in XML | 3h6q_validation.xml.gz | 12.8 KB | Display | |
Data in CIF | 3h6q_validation.cif.gz | 19.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/h6/3h6q ftp://data.pdbj.org/pub/pdb/validation_reports/h6/3h6q | HTTPS FTP |
-Related 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 on special symmetry positions |
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Details | 1 |
-Components
#1: Protein | Mass: 19212.455 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Macrolepiota procera (parasol mushroom) Plasmid: PET3a / Production host: Escherichia coli (E. coli) / Strain (production host): BL21DE3 / References: UniProt: B9V973 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.72 Å3/Da / Density % sol: 54.8 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7 Details: BisTrisPropane buffer, pH=7.0, 200 mM sodium citrate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ELETTRA / Beamline: 5.2R / Wavelength: 1.1 Å |
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Jun 20, 2008 |
Radiation | Monochromator: Double Crystal Si111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 1.64→50 Å / Num. all: 2612 / Num. obs: 25746 / % possible obs: 98.6 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 10.3 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 69.034 |
Reflection shell | Resolution: 1.64→1.7 Å / Redundancy: 8.3 % / Rmerge(I) obs: 0.142 / Num. unique all: 2206 / % possible all: 86.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.643→27.714 Å
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.643→27.714 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.643→1.686 Å
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