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- PDB-1rcn: CRYSTAL STRUCTURE OF THE RIBONUCLEASE A D(APTPAPAPG) COMPLEX : DI... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1rcn | ||||||
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Title | CRYSTAL STRUCTURE OF THE RIBONUCLEASE A D(APTPAPAPG) COMPLEX : DIRECT EVIDENCE FOR EXTENDED SUBSTRATE RECOGNITION | ||||||
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![]() | HYDROLASE/DNA / PROTEIN-DNA COMPLEX / HYDROLASE-DNA COMPLEX | ||||||
Function / homology | ![]() 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 | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Fontecilla-Camps, J.C. / De Llorens, R. / Le Du, M.H. / Cuchillo, C.M. | ||||||
![]() | ![]() Title: Crystal structure of ribonuclease A.d(ApTpApApG) complex. Direct evidence for extended substrate recognition. Authors: Fontecilla-Camps, J.C. / de Llorens, R. / le Du, M.H. / Cuchillo, C.M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 35.1 KB | Display | ![]() |
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PDB format | ![]() | 27.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 371.1 KB | Display | ![]() |
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Full document | ![]() | 378.6 KB | Display | |
Data in XML | ![]() | 5.2 KB | Display | |
Data in CIF | ![]() | 7.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: DNA chain | Mass: 1198.856 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: Protein | Mass: 13708.326 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.27 Å3/Da / Density % sol: 45.91 % | |||||||||||||||
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Crystal grow | *PLUS Temperature: 4 ℃ / pH: 5.3 / Method: vapor diffusion, hanging drop | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.3 Å / Num. obs: 5664 / Redundancy: 3.9 % / Rmerge(I) obs: 0.129 |
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Processing
Software | Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.32→8 Å / σ(F): 2 Details: OLIGONUCLEOTIDE STEREOCHEMISTRY: NUCLEOTIDE SUGAR PUCKER BASE A1 C2'-ENDO SYN T2 C2'-ENDO ANTI A3 C3'-ENDO ANTI A4 C3'-ENDO ANTI
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Refinement step | Cycle: LAST / Resolution: 2.32→8 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.32 Å / Lowest resolution: 8 Å / σ(F): 2 / Rfactor obs: 0.172 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.57 |