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Open data
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Basic information
Entry | Database: PDB / ID: 2vq8 | ||||||
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Title | RNASE ZF-1A | ||||||
![]() | RNASE ZF-1A | ||||||
![]() | HYDROLASE / EVOLUTION / ZEBRAFISH / POLYMORPHISM / RIBONUCLEASES | ||||||
Function / homology | P-30 Protein / Ribonuclease A-like domain / Roll / Alpha Beta![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kazakou, K. / Holloway, D.E. / Prior, S.H. / Subramanian, V. / Acharya, K.R. | ||||||
![]() | ![]() Title: Ribonuclease A Homologues of the Zebrafish: Polymorphism, Crystal Structures of Two Representatives and Their Evolutionary Implications. Authors: Kazakou, K. / Holloway, D.E. / Prior, S.H. / Subramanian, V. / Acharya, K.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 72 KB | Display | ![]() |
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PDB format | ![]() | 52.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 424 KB | Display | ![]() |
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Full document | ![]() | 424.2 KB | Display | |
Data in XML | ![]() | 9 KB | Display | |
Data in CIF | ![]() | 12.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2vq9C ![]() 1angS C: citing same article ( S: Starting model for refinement |
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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: Protein | Mass: 15899.014 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-CL / |
#3: Water | ChemComp-HOH / |
Sequence details | THE FIRST 11 RESIDUES MET(-11) TO MET(-1), INCLUDING THE OBSERVED RESIDUES HIS(-2) AND MET(-1), ARE ...THE FIRST 11 RESIDUES MET(-11) TO MET(-1), INCLUDING THE OBSERVED RESIDUES HIS(-2) AND MET(-1), ARE PART OF THE HIS-TAG |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 35 % / Description: NONE |
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Crystal grow | pH: 8 Details: 25% PEG 4000, 0.2M AMMONIUM SULPHATE, 0.1M TRIS-HCL PH 8.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jan 18, 2007 / Details: MIRRORS |
Radiation | Monochromator: SI 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.978 Å / Relative weight: 1 |
Reflection | Resolution: 1.35→50 Å / Num. obs: 27012 / % possible obs: 93.7 % / Observed criterion σ(I): 0 / Redundancy: 7 % / Rmerge(I) obs: 0.04 / Net I/σ(I): 22.8 |
Reflection shell | Resolution: 1.35→1.4 Å / Rmerge(I) obs: 0.31 / Mean I/σ(I) obs: 2 / % possible all: 61.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1ANG Resolution: 1.35→23.24 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.93 / SU B: 2.038 / SU ML: 0.039 / Cross valid method: THROUGHOUT / ESU R: 0.079 / ESU R Free: 0.071 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 11.24 Å2
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Refinement step | Cycle: LAST / Resolution: 1.35→23.24 Å
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