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Yorodumi- PDB-1ppd: RESTRAINED LEAST-SQUARES REFINEMENT OF THE SULFHYDRYL PROTEASE PA... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ppd | ||||||
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Title | RESTRAINED LEAST-SQUARES REFINEMENT OF THE SULFHYDRYL PROTEASE PAPAIN TO 2.0 ANGSTROMS | ||||||
Components | 2-HYDROXYETHYL-THIOPAPAIN | ||||||
Keywords | HYDROLASE (SULFHYDRYL PROTEINASE) | ||||||
Function / homology | Function and homology information papain / serpin family protein binding / cysteine-type peptidase activity / proteolysis Similarity search - Function | ||||||
Biological species | Carica papaya (papaya) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Jansonius, J.N. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.A / Year: 1984 Title: Restrained Least-Squares Refinement of the Sulfhydryl Protease Papain to 2.0 Angstroms Authors: Priestle, J.P. / Ford, G.C. / Glor, M. / Mehler, E.L. / Smit, J.D.G. / Thaller, C. / Jansonius, J.N. #1: Journal: Adv.Protein Chem. / Year: 1971 Title: The Structure of Papain Authors: Drenth, J. / Jansonius, J.N. / Koekoek, R. / Wolthers, B.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ppd.cif.gz | 54.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ppd.ent.gz | 42.2 KB | Display | PDB format |
PDBx/mmJSON format | 1ppd.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pp/1ppd ftp://data.pdbj.org/pub/pdb/validation_reports/pp/1ppd | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: RESIDUE CYS 25, THE ACTIVE SULPHYDRYL IS INHIBITED WITH 2-MERCAPTOETHANOL 2: RESIDUE 152 IS A CIS PROLINE. 3: ILE 34 HAS A SECOND, LESS OCCUPIED, SIDE CHAIN CONFORMATION WHICH IS NOT INCLUDED IN THIS LIST. |
-Components
#1: Protein | Mass: 23449.346 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Carica papaya (papaya) / References: UniProt: P00784, papain |
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#2: Chemical | ChemComp-BME / |
#3: Water | ChemComp-HOH / |
Compound details | RESIDUE CYS 25, THE ACTIVE SULPHYDRYL |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.3 % |
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
-Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2→10 Å Details: THE CRYSTALS USED ARE OF THE *D* TYPE, COURTESY OF PROF. J. DRENTH OF THE UNIVERSITY OF GRONINGEN, GRONINGEN, THE NETHERLANDS.
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Refinement step | Cycle: LAST / Resolution: 2→10 Å
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Refine LS restraints |
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