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Yorodumi- PDB-4srn: STRUCTURAL CHANGES THAT ACCOMPANY THE REDUCED CATALYTIC EFFICIENC... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4srn | ||||||
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Title | STRUCTURAL CHANGES THAT ACCOMPANY THE REDUCED CATALYTIC EFFICIENCY OF TWO SEMISYNTHETIC RIBONUCLEASE ANALOGS | ||||||
Components | (RIBONUCLEASE A) x 2 | ||||||
Keywords | HYDROLASE(NUCLEIC ACID / RNA) | ||||||
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: 2 Å | ||||||
Authors | deMel, V.S.J. / Martin, P.D. / Doscher, M.S. / Edwards, B.F.P. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1992 Title: Structural changes that accompany the reduced catalytic efficiency of two semisynthetic ribonuclease analogs. Authors: deMel, V.S. / Martin, P.D. / Doscher, M.S. / Edwards, B.F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4srn.cif.gz | 35.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4srn.ent.gz | 26.9 KB | Display | PDB format |
PDBx/mmJSON format | 4srn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4srn_validation.pdf.gz | 393.4 KB | Display | wwPDB validaton report |
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Full document | 4srn_full_validation.pdf.gz | 403.2 KB | Display | |
Data in XML | 4srn_validation.xml.gz | 6 KB | Display | |
Data in CIF | 4srn_validation.cif.gz | 8.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sr/4srn ftp://data.pdbj.org/pub/pdb/validation_reports/sr/4srn | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO A 93 |
-Components
#1: Protein | Mass: 12494.965 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bos taurus (cattle) / References: UniProt: P61823, EC: 3.1.27.5 |
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#2: Protein/peptide | Mass: 1187.365 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bos taurus (cattle) / References: UniProt: P61823 |
#3: Chemical | ChemComp-SO4 / |
#4: Water | ChemComp-HOH / |
Compound details | FEATURES OF THE STRUCTURE: 1. IN SPITE OF AN EIGHT-RESIDUE REDUNDANCY BETWEEN RNASE 1 - 118 AND ...FEATURES OF THE STRUCTURE: 1. IN SPITE OF AN EIGHT-RESIDUE REDUNDANCY |
Nonpolymer details | A TOTAL OF 111 WATER MOLECULES WERE INCLUDED. A SULFATE ANION OCCURS IN THE ACTIVE SITE AND WAS ...A TOTAL OF 111 WATER MOLECULES WERE INCLUDED. A SULFATE ANION OCCURS IN THE ACTIVE SITE AND WAS ALSO REFINED AS PART OF THE STRUCTURE. |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.87 Å3/Da / Density % sol: 57.12 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Details: THE MOTHER LIQUOR WAS 80 PERCENT SATURATED AMMONIUM SULFATE, PH 5.2. | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 5.2 / Method: macro seeding | ||||||||||||||||||||||||||||||||||||||||||
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 | Observed criterion σ(F): 2 |
Reflection | *PLUS Highest resolution: 2 Å / Num. obs: 10236 / % possible obs: 90.7 % / Rmerge(I) obs: 0.051 |
-Processing
Software |
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Refinement | Resolution: 2→5 Å / Rfactor Rwork: 0.172 / Rfactor obs: 0.172 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→5 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR/PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection obs: 10236 / σ(F): 2 / Rfactor obs: 0.172 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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