- PDB-4zkj: Crystal structure of CRISPR-associated protein -
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Basic information
Entry
Database: PDB / ID: 4zkj
Title
Crystal structure of CRISPR-associated protein
Components
CRISPR-associated protein Cas1
Keywords
UNKNOWN FUNCTION / CRISPR / Cas
Function / homology
Function and homology information
maintenance of CRISPR repeat elements / DNA endonuclease activity / defense response to virus / Hydrolases; Acting on ester bonds / DNA binding / metal ion binding Similarity search - Function
CRISPR-associated protein Cas1, NMENI subtype / CRISPR-associated endonuclease Cas1, N-terminal domain / CRISPR-associated protein Cas1 / CRISPR-associated endonuclease Cas1, C-terminal domain / CRISPR associated protein Cas1 Similarity search - Domain/homology
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.9793 Å / Relative weight: 1
Reflection
Resolution: 2.25→50 Å / Num. all: 579853 / Num. obs: 579520 / % possible obs: 99.6 % / Redundancy: 10.9 % / Rmerge(I) obs: 0.078 / Net I/σ(I): 21.25
Reflection shell
Resolution: 2.25→2.33 Å / Redundancy: 11.2 % / Rmerge(I) obs: 0.657 / Mean I/σ(I) obs: 3.97 / % possible all: 99.5
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Processing
Software
Name
Version
Classification
REFMAC
5.8.0049
refinement
HKL-2000
datacollection
HKL-2000
datascaling
PHENIX
phasing
PHENIX
modelbuilding
HKL-2000
datareduction
Refinement
Method to determine structure: SAD / Resolution: 2.25→35.14 Å / Cor.coef. Fo:Fc: 0.957 / Cor.coef. Fo:Fc free: 0.944 / SU B: 10.429 / SU ML: 0.112 / Cross valid method: THROUGHOUT / ESU R: 0.169 / ESU R Free: 0.152 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.21129
1961
3.8 %
RANDOM
Rwork
0.18185
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obs
0.18295
546373
97.6 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK