X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JNXPDB entry 1JNX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.5294100 mM sodium acetate (pH 4.5), 25-27% (v/v) PEG400, and 200 mM calcium acetate, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
3.5865.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 83.33α = 90
b = 181.513β = 90
c = 194.643γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4MIRRORS2006-10-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X4A0.97905NSLSX4A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
13.23092.50.1187.78763.24470742426
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.23.3183.50.3912.8432.23981

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1JNX3.2129.894470742426224991.560.25970.257130.3075RANDOM87.613
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]
-0.910.580.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.547
r_dihedral_angle_3_deg21.392
r_dihedral_angle_4_deg19.375
r_dihedral_angle_1_deg6.207
r_angle_refined_deg1.162
r_scangle_it0.525
r_nbtor_refined0.31
r_scbond_it0.305
r_mcangle_it0.244
r_nbd_refined0.213
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.547
r_dihedral_angle_3_deg21.392
r_dihedral_angle_4_deg19.375
r_dihedral_angle_1_deg6.207
r_angle_refined_deg1.162
r_scangle_it0.525
r_nbtor_refined0.31
r_scbond_it0.305
r_mcangle_it0.244
r_nbd_refined0.213
r_symmetry_vdw_refined0.212
r_xyhbond_nbd_refined0.154
r_mcbond_it0.138
r_chiral_restr0.08
r_symmetry_hbond_refined0.07
r_bond_refined_d0.008
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13867
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
SnBphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing