[English] 日本語
Yorodumi- PDB-1uvp: Structure Of The Complex Of Porcine Pancreatic Elastase In Comple... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1uvp | ||||||
---|---|---|---|---|---|---|---|
Title | Structure Of The Complex Of Porcine Pancreatic Elastase In Complex With Cadmium Refined At 1.85 A Resolution (Crystal B) | ||||||
Components | ELASTASE 1 | ||||||
Keywords | HYDROLASE / CHYMOTRYPSIN-FOLD / BETA-BARREL / SERINE PROTEASE | ||||||
Function / homology | Function and homology information pancreatic elastase / serine-type endopeptidase activity / proteolysis / extracellular space / metal ion binding Similarity search - Function | ||||||
Biological species | SUS SCROFA (pig) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.85 Å | ||||||
Authors | Weiss, M.S. / Panjikar, S. / Mueller-Dieckmann, C. / Tucker, P.A. | ||||||
Citation | Journal: J.Synchrotron Radiat. / Year: 2005 Title: On the Influence of the Incident Photon Energy on the Radiation Damage in Crystalline Biological Samples Authors: Weiss, M.S. / Panjikar, S. / Mueller-Dieckmann, C. / Tucker, P.A. | ||||||
History |
| ||||||
Remark 700 | SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS BELOW ... SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AB" 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. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1uvp.cif.gz | 66.2 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1uvp.ent.gz | 47.6 KB | Display | PDB format |
PDBx/mmJSON format | 1uvp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uv/1uvp ftp://data.pdbj.org/pub/pdb/validation_reports/uv/1uvp | HTTPS FTP |
---|
-Related structure data
Related structure data | 1uvoC 1lkbS S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 25929.016 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) SUS SCROFA (pig) / Tissue: PANCREAS / References: UniProt: P00772, pancreatic elastase |
---|
-Non-polymers , 5 types, 233 molecules
#2: Chemical | ChemComp-CD / |
---|---|
#3: Chemical | ChemComp-ACT / |
#4: Chemical | ChemComp-GOL / |
#5: Chemical | ChemComp-CL / |
#6: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.04 Å3/Da / Density % sol: 39.68 % |
---|---|
Crystal grow | pH: 5.1 / Details: SODIUM ACETATE,SODIUM SULFATE, pH 5.10 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ROTATING ANODE / Wavelength: 2 |
Detector | Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 2 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→99 Å / Num. obs: 18684 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 6.56 % / Rmerge(I) obs: 0.025 |
Reflection shell | Resolution: 1.85→1.88 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.053 / % possible all: 100 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1LKB Resolution: 1.85→20 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MAXIMUM LIKELIHOOD
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.85→20 Å
| ||||||||||||||||||||
LS refinement shell | Resolution: 1.85→20 Å |