+Open data
-Basic information
Entry | Database: PDB / ID: 1bra | ||||||
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Title | RELOCATING A NEGATIVE CHARGE IN THE BINDING POCKET OF TRYPSIN | ||||||
Components | TRYPSIN | ||||||
Keywords | PROTEINASE/INHIBITOR / PROTEINASE-INHIBITOR complex | ||||||
Function / homology | Function and homology information Antimicrobial peptides / Alpha-defensins / Activation of Matrix Metalloproteinases / Collagen degradation / Neutrophil degranulation / collagen catabolic process / trypsin / digestion / response to nutrient / serine-type endopeptidase activity ...Antimicrobial peptides / Alpha-defensins / Activation of Matrix Metalloproteinases / Collagen degradation / Neutrophil degranulation / collagen catabolic process / trypsin / digestion / response to nutrient / serine-type endopeptidase activity / calcium ion binding / proteolysis / extracellular space / extracellular region Similarity search - Function | ||||||
Biological species | Rattus rattus (black rat) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.2 Å | ||||||
Authors | Perona, J.J. / Mcgrath, M.E. / Fletterick, R.J. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1993 Title: Relocating a negative charge in the binding pocket of trypsin. Authors: Perona, J.J. / Tsu, C.A. / McGrath, M.E. / Craik, C.S. / Fletterick, R.J. #1: Journal: J.Mol.Biol. / Year: 1993 Title: Crystal Structures of Rat Anionic Trypsin Complexed with the Protein Inhibitors Appi and Bpti Authors: Perona, J.J. / Tsu, C.A. / Craik, C.S. / Fletterick, R.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bra.cif.gz | 54.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bra.ent.gz | 42.1 KB | Display | PDB format |
PDBx/mmJSON format | 1bra.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/br/1bra ftp://data.pdbj.org/pub/pdb/validation_reports/br/1bra | HTTPS FTP |
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-Related 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: 23814.838 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus rattus (black rat) / References: UniProt: P00763, trypsin |
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#2: Chemical | ChemComp-CA / |
#3: Chemical | ChemComp-BEN / |
#4: Water | ChemComp-HOH / |
Nonpolymer details | BENZAMIDINE IS AN ANALOG OF ARGININE WHICH POSSESSES A POSITIVELY CHARGED AMIDINIUM GROUP RATHER ...BENZAMIDIN |
Sequence details | SEQUENCE ADVISORY NOTICE: SEQUENCE FOR THIS STRUCTURE WAS TAKEN FROM GENEMBL WHICH DIFFERS FROM ...SEQUENCE ADVISORY NOTICE: SEQUENCE FOR THIS STRUCTURE WAS TAKEN FROM GENEMBL WHICH DIFFERS FROM SWISSPROT SEQUENCE AT POSITIONS 61 AND 65. |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.37 Å3/Da / Density % sol: 63.46 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 17 ℃ / Method: vapor diffusion, hanging drop / pH: 8 | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.2 Å / Num. obs: 18200 / % possible obs: 73 % / Num. measured all: 50400 / Rmerge(I) obs: 0.089 |
-Processing
Software | Name: PROLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.2→6 Å / Rfactor obs: 0.156 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→6 Å
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Refine LS restraints |
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Software | *PLUS Name: PROLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.156 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |