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Yorodumi- PDB-1ruv: RIBONUCLEASE A-URIDINE VANADATE COMPLEX: HIGH RESOLUTION RESOLUTI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ruv | ||||||
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Title | RIBONUCLEASE A-URIDINE VANADATE COMPLEX: HIGH RESOLUTION RESOLUTION X-RAY STRUCTURE (1.3 A) | ||||||
Components | RIBONUCLEASE A | ||||||
Keywords | ENDORIBONUCLEASE / HYDROLASE / NUCLEASE / GLYCOPROTEIN | ||||||
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: 1.25 Å | ||||||
Authors | Ladner, J.E. / Wladkowski, B. / Svensson, L.A. / Sjolin, L. / Gilliland, G.L. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1997 Title: X-ray structure of a ribonuclease A-uridine vanadate complex at 1.3 A resolution. Authors: Ladner, J.E. / Wladkowski, B.D. / Svensson, L.A. / Sjolin, L. / Gilliland, G.L. #1: Journal: Protein Pept.Lett. / Year: 1994 Title: The Active Site of Bovin Pancreatic Ribonuclease: An Example of Solvent Modulation Specificity Authors: Gilliland, G.L. / Dill, J. / Pechik, I. / Svensson, L.A. / Sjolin, L. #2: Journal: Biochemistry / Year: 1988 Title: Structure of Phosphate-Free Ribonuclease A Refined at 1.26 A Authors: Wlodawer, A. / Svensson, L.A. / Sjolin, L. / Gilliland, G.L. #3: Journal: Biochemistry / Year: 1985 Title: Nuclear Magnetic Resonance and Neutron Diffraction Studies of the Complex of Ribonuclease A with Uridine Vanadate, a Transition-State Analogue Authors: Borah, B. / Chen, C.W. / Egan, W. / Miller, M. / Wlodawer, A. / Cohen, J.S. #4: Journal: Proc.Natl.Acad.Sci.USA / Year: 1983 Title: Active Site of Rnase: Neutron Diffraction Study of a Complex with Uridine Vanadate, a Transition-State Analog Authors: Wlodawer, A. / Miller, M. / Sjolin, L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ruv.cif.gz | 61 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ruv.ent.gz | 46 KB | Display | PDB format |
PDBx/mmJSON format | 1ruv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1ruv_validation.pdf.gz | 442.4 KB | Display | wwPDB validaton report |
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Full document | 1ruv_full_validation.pdf.gz | 448.2 KB | Display | |
Data in XML | 1ruv_validation.xml.gz | 5.3 KB | Display | |
Data in CIF | 1ruv_validation.cif.gz | 7.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ru/1ruv ftp://data.pdbj.org/pub/pdb/validation_reports/ru/1ruv | HTTPS FTP |
-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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-Components
#1: Protein | Mass: 13708.326 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Bos taurus (cattle) / Organ: PANCREAS / References: UniProt: P61823, EC: 3.1.27.5 |
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#2: Chemical | ChemComp-UVC / |
#3: Chemical | ChemComp-TBU / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.12 Å3/Da / Density % sol: 42.03 % | |||||||||||||||
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Crystal grow | *PLUS pH: 5.3 / Method: unknown | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: ELECTRONICS COMPUTING TECHNOLOGIES / Detector: AREA DETECTOR |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 25327 / % possible obs: 83.576 % |
Reflection | *PLUS Highest resolution: 1.25 Å / Num. all: 30307 / Num. measured all: 94196 / Rmerge(I) obs: 0.05 |
-Processing
Software |
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Refinement | Resolution: 1.25→10 Å / σ(F): 2 /
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Refinement step | Cycle: LAST / Resolution: 1.25→10 Å
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Refine LS restraints |
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Software | *PLUS Name: PROFFT / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.197 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |