X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1PHKPDB ENTRY 1PHK

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.5298PEG300, HEPES, pH6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.2846.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 70.43α = 90
b = 103.94β = 90
c = 110.55γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315mirrors2007-11-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.9200DiamondI03

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
13.1459.4496.40.1230.05613.15.27029184.992
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)
13.143.3196.40.6360.2832.85.31030

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 1PHK3.1459.47029669733295.210.226030.222790.28902RANDOM58.85
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]
-5.29-2.627.92
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.752
r_dihedral_angle_4_deg22.698
r_dihedral_angle_3_deg15.596
r_dihedral_angle_1_deg6.375
r_angle_refined_deg1.076
r_angle_other_deg0.775
r_scangle_it0.66
r_scbond_it0.45
r_mcangle_it0.418
r_mcbond_it0.375
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.752
r_dihedral_angle_4_deg22.698
r_dihedral_angle_3_deg15.596
r_dihedral_angle_1_deg6.375
r_angle_refined_deg1.076
r_angle_other_deg0.775
r_scangle_it0.66
r_scbond_it0.45
r_mcangle_it0.418
r_mcbond_it0.375
r_symmetry_hbond_refined0.293
r_symmetry_vdw_refined0.229
r_nbd_refined0.212
r_symmetry_vdw_other0.192
r_nbtor_refined0.18
r_nbd_other0.174
r_xyhbond_nbd_refined0.102
r_nbtor_other0.084
r_chiral_restr0.06
r_mcbond_other0.031
r_bond_refined_d0.008
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2121
Nucleic Acid Atoms
Solvent Atoms4
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing