X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GG3pdb entry 1gg3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.529325% PEG3350, 0.2M magnesium chloride, 1% w/w dispase-I, pH 7.5, vapor diffusion, sitting drop, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.0439.81

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.001α = 90
b = 53.469β = 106.96
c = 88.766γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152010-11-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.98322APS19-ID

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
11.85099.70.05510.53.651901
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)
1.81.8397.10.9893.52509

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 1gg31.83051670202999.7470.2090.20670.2615thin shells (SFTOOLS)25.977
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]
-0.0860.0561.283-1.164
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.414
r_dihedral_angle_4_deg16.037
r_dihedral_angle_3_deg13.965
r_dihedral_angle_1_deg6.022
r_scangle_it3.423
r_scbond_it2.262
r_mcangle_it1.533
r_angle_refined_deg1.464
r_angle_other_deg0.881
r_mcbond_it0.855
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.414
r_dihedral_angle_4_deg16.037
r_dihedral_angle_3_deg13.965
r_dihedral_angle_1_deg6.022
r_scangle_it3.423
r_scbond_it2.262
r_mcangle_it1.533
r_angle_refined_deg1.464
r_angle_other_deg0.881
r_mcbond_it0.855
r_mcbond_other0.222
r_chiral_restr0.091
r_bond_refined_d0.017
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4277
Nucleic Acid Atoms
Solvent Atoms220
Heterogen Atoms19

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
SBC-Collectdata collection
HKL-3000data reduction
HKL-3000data scaling