1AAY

ZIF268 ZINC FINGER-DNA COMPLEX


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ZAAPDB ENTRY 1ZAA, WITHOUT WATERS

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82.5-5% PEG 400; 500-700MM NACL; 25MM BIS-TRIS PROPANE, PH 8.0, VAPOR DIFFUSION, HANGING DROP
Crystal Properties
Matthews coefficientSolvent content
2.455.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.4α = 90
b = 56.2β = 90
c = 130.8γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray295IMAGE PLATERIGAKU RAXIS IICYALE MIRRORS1994-08-01M
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.62096.60.0620.02534.56.522749-2-2
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.61.6692.80.5340.22324

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGOUTPDB ENTRY 1ZAA, WITHOUT WATERS1.662192072312870.2030.1950.1950.242RANDOM30
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d_na29.8
x_dihedral_angle_d22.8
x_scangle_it3.3
x_angle_deg_na3.02
x_mcangle_it2.38
x_scbond_it2.03
x_mcbond_it1.46
x_angle_deg1.29
x_improper_angle_d1.23
x_improper_angle_d_na0.6
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d_na29.8
x_dihedral_angle_d22.8
x_scangle_it3.3
x_angle_deg_na3.02
x_mcangle_it2.38
x_scbond_it2.03
x_mcbond_it1.46
x_angle_deg1.29
x_improper_angle_d1.23
x_improper_angle_d_na0.6
x_bond_d_na0.009
x_bond_d0.007
x_bond_d_prot
x_angle_d
x_angle_d_na
x_angle_d_prot
x_angle_deg_prot
x_dihedral_angle_d_prot
x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms734
Nucleic Acid Atoms445
Solvent Atoms148
Heterogen Atoms3

Software

Software
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing