X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GM0pdb entry 1GM0

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5277NaF, PEG 3350, pH 7.5, hanging drop, temperature 277K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties
Matthews coefficientSolvent content
2.2846

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.24α = 90
b = 70.79β = 90
c = 75.49γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCD2002-06-05SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.950CHESSF1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
1243911209422

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpdb entry 1GM02.343134391208060589.890.2220.220.220.27RANDOM26.569
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]
-0.232.59-2.36
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it8.05
r_dihedral_angle_1_deg5.562
r_scbond_it5.153
r_mcangle_it4.414
r_angle_refined_deg2.533
r_mcbond_it2.324
r_angle_other_deg1.133
r_symmetry_vdw_other0.365
r_symmetry_vdw_refined0.314
r_nbd_other0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it8.05
r_dihedral_angle_1_deg5.562
r_scbond_it5.153
r_mcangle_it4.414
r_angle_refined_deg2.533
r_mcbond_it2.324
r_angle_other_deg1.133
r_symmetry_vdw_other0.365
r_symmetry_vdw_refined0.314
r_nbd_other0.25
r_nbd_refined0.231
r_symmetry_hbond_refined0.216
r_xyhbond_nbd_refined0.18
r_chiral_restr0.174
r_nbtor_other0.098
r_bond_refined_d0.048
r_gen_planes_refined0.015
r_gen_planes_other0.013
r_bond_other_d0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2166
Nucleic Acid Atoms
Solvent Atoms95
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction