X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HLDPDB ENTRY 1HLD

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7277MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.3246.89

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 46.271α = 90
b = 180.398β = 106.65
c = 46.176γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV++CONFOCAL2000-09-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.5418

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
1228.6390.70.0370.03711.42414224142226.9
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)
2.012.071000.0650.0658.91.6

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 1HLD2204142241073125290.80.19560.196730.195630.23158RANDOM28.007
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]
1.32-0.04-2.41.06
RMS Deviations
KeyRefinement Restraint Deviation
p_multtor_nbd16.399
p_singtor_nbd4.044
p_scangle_it3.799
p_scbond_it2.295
p_angle_deg1.526
p_mcangle_it1.33
p_mcbond_it0.735
p_xyhbond_nbd0.138
p_chiral_restr0.102
p_bond_d0.012
RMS Deviations
KeyRefinement Restraint Deviation
p_multtor_nbd16.399
p_singtor_nbd4.044
p_scangle_it3.799
p_scbond_it2.295
p_angle_deg1.526
p_mcangle_it1.33
p_mcbond_it0.735
p_xyhbond_nbd0.138
p_chiral_restr0.102
p_bond_d0.012
p_plane_restr0.005
p_angle_d
p_planar_d
p_hb_or_metal_coord
p_xhyhbond_nbd
p_planar_tor
p_staggered_tor
p_orthonormal_tor
p_transverse_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5566
Nucleic Acid Atoms
Solvent Atoms164
Heterogen Atoms58

Software

Software
Software NamePurpose
AMoREphasing
REFMACrefinement
CrystalCleardata reduction
CCP4data scaling