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Yorodumi- PDB-1gl0: structure of the complex between bovine alpha-chymotrypsin and PM... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1gl0 | ||||||
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Title | structure of the complex between bovine alpha-chymotrypsin and PMP-D2v, an inhibitor from the insect Locusta migratoria | ||||||
Components |
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Keywords | HYDROLASE/INHIBITOR / COMPLEX (PROTEASE-INHIBITOR) / HYDROLASE / SERINE PROTEASE / SERINE PROTEASE INHIBITOR / HYDROLASE-INHIBITOR complex | ||||||
Function / homology | Function and homology information chymotrypsin / serpin family protein binding / serine protease inhibitor complex / digestion / serine-type endopeptidase inhibitor activity / serine-type endopeptidase activity / proteolysis / extracellular region Similarity search - Function | ||||||
Biological species | BOS TAURUS (cattle) LOCUSTA MIGRATORIA (migratory locust) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3 Å | ||||||
Authors | Roussel, A. / Kellenberger, C. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2001 Title: Complexation of Two Proteic Insect Inhibitors to the Active Site of Chymotrypsin Suggests Decoupled Roles for Binding and Selectivity Authors: Roussel, A. / Mathieu, M. / Dobbs, A. / Luu, B. / Cambillau, C. / Kellenberger, C. | ||||||
History |
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Remark 700 | SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "EB" IN EACH CHAIN ON SHEET RECORDS BELOW ... SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "EB" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gl0.cif.gz | 65.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gl0.ent.gz | 48.2 KB | Display | PDB format |
PDBx/mmJSON format | 1gl0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1gl0_validation.pdf.gz | 440.2 KB | Display | wwPDB validaton report |
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Full document | 1gl0_full_validation.pdf.gz | 443 KB | Display | |
Data in XML | 1gl0_validation.xml.gz | 12.4 KB | Display | |
Data in CIF | 1gl0_validation.cif.gz | 16.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gl/1gl0 ftp://data.pdbj.org/pub/pdb/validation_reports/gl/1gl0 | HTTPS FTP |
-Related structure data
Related structure data | 1gl1C 1choS C: citing same article (ref.) 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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Unit cell |
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-Components
#1: Protein | Mass: 25686.037 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: COMMERCIALLY AVAILABLE / Source: (natural) BOS TAURUS (cattle) / Organ: PANCREAS / References: UniProt: P00766, chymotrypsin | ||
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#2: Protein/peptide | Mass: 3721.241 Da / Num. of mol.: 1 / Mutation: YES / Source method: obtained synthetically / Source: (synth.) LOCUSTA MIGRATORIA (migratory locust) / References: UniProt: P80060 | ||
#3: Chemical | #4: 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: 3.4 Å3/Da / Density % sol: 60 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5 / Details: 0.1 M NA ACETATE PH 5.0, 29% PEG 400, 0.1 M CDCL2 | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 300 K |
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Diffraction source | Source: SYNCHROTRON / Site: LURE / Beamline: DW32 / Wavelength: 0.97 |
Detector | Date: Nov 15, 1997 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 3→15 Å / Num. obs: 8699 / % possible obs: 99.8 % / Observed criterion σ(I): 0 / Redundancy: 7.3 % / Biso Wilson estimate: 27.1 Å2 / Rmerge(I) obs: 0.151 |
Reflection shell | Resolution: 3→3.1 Å / Redundancy: 7.5 % / Rmerge(I) obs: 0.423 / % possible all: 99.9 |
Reflection | *PLUS Lowest resolution: 15 Å |
Reflection shell | *PLUS % possible obs: 99.9 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1CHO Resolution: 3→14.98 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 8013845.61 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 25 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3→14.98 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3→3.19 Å / Rfactor Rfree error: 0.039 / Total num. of bins used: 6
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Xplor file |
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Refinement | *PLUS % reflection Rfree: 5 % / Rfactor obs: 0.164 / Rfactor Rfree: 0.193 / Rfactor Rwork: 0.164 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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