+Open data
-Basic information
Entry | Database: PDB / ID: 1xpt | ||||||
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Title | BOVINE RIBONUCLEASE A (PHOSPHATE-FREE) | ||||||
Components | RIBONUCLEASE APancreatic ribonuclease family | ||||||
Keywords | HYDROLASE / HYDROLASE (PHOSPHORIC DIESTER) | ||||||
Function / homology | Function and homology information pancreatic ribonuclease / ribonuclease A activity / RNA nuclease activity / nucleic acid binding / lyase activity / defense response to Gram-positive bacterium / extracellular region Similarity search - Function | ||||||
Biological species | Bos taurus (cattle) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.9 Å | ||||||
Authors | Sadasivan, C. / Nagendra, H.G. / Vijayan, M. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1998 Title: Plasticity, hydration and accessibility in ribonuclease A. The structure of a new crystal form and its low-humidity variant. Authors: Sadasivan, C. / Nagendra, H.G. / Vijayan, M. #1: Journal: Acta Crystallogr.,Sect.D / Year: 1995 Title: Water-Dependent Domain Motion and Flexibility in Ribonuclease A and the Invariant Features in its Hydration Shell. An X-Ray Study of Two Low-Humidity Crystal Forms of the Enzyme Authors: Kishan, K.V.R. / Chandra, N.R. / Sudarsanakumar, C. / Suguna, K. / Vijayan, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xpt.cif.gz | 59.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1xpt.ent.gz | 48.4 KB | Display | PDB format |
PDBx/mmJSON format | 1xpt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xp/1xpt ftp://data.pdbj.org/pub/pdb/validation_reports/xp/1xpt | HTTPS FTP |
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-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
#1: Protein | Mass: 13708.326 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Details: PHOSPHATE-FREE / Source: (natural) Bos taurus (cattle) / Organ: PANCREAS / References: UniProt: P61823, EC: 3.1.27.5 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.12 Å3/Da / Density % sol: 41.87 % | |||||||||||||||
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Crystal | *PLUS Density % sol: 41.9 % | |||||||||||||||
Crystal grow | *PLUS pH: 7.6 / Method: unknown | |||||||||||||||
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 | Highest resolution: 1.9 Å / Num. obs: 16089 / % possible obs: 88.9 % / Observed criterion σ(I): 0 / Rmerge(I) obs: 0.0554 |
Reflection | *PLUS Num. measured all: 49377 |
Reflection shell | *PLUS Highest resolution: 1.9 Å / Lowest resolution: 2 Å / % possible obs: 48 % |
-Processing
Software |
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Refinement | Resolution: 1.9→10 Å / σ(F): 2
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Displacement parameters | Biso mean: 15.6 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.17 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→10 Å
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Refine LS restraints |
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Software | *PLUS Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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