X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 293.0
Details 100 mM Tris, 200 mM NH4(SO4)2, 25% PEG 4000, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.8 α = 90
b = 106.91 β = 90
c = 110.06 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1998-05-22
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.0000 SSRL BL7-1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.8 76.7 98.1 -- 0.056 -- 4.3 12734 12734 -- -3.0 39.3
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.8 2.95 96.0 -- 0.29 2.5 4.0 1810

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.8 76.7 -- 0.0 11481 11481 1018 98.15 0.22174 0.22174 0.21632 0.28097 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.8 2.873 -- 71 792 0.302 0.385 -- 95.57
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.724
Anisotropic B[1][1] -1.34
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.5
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.473
r_dihedral_angle_2_deg 35.718
r_dihedral_angle_1_deg 7.16
r_gen_planes_refined 0.004
r_bond_other_d 0.001
r_mcbond_other 0.067
r_dihedral_angle_4_deg 23.189
r_scangle_it 1.722
r_scbond_it 0.957
r_gen_planes_other 0.001
r_mcangle_it 0.773
r_chiral_restr 0.078
r_symmetry_vdw_other 0.204
r_nbtor_other 0.089
r_symmetry_vdw_refined 0.11
r_nbtor_refined 0.189
r_mcbond_it 0.688
r_symmetry_hbond_refined 0.17
r_nbd_other 0.186
r_xyhbond_nbd_refined 0.178
r_nbd_refined 0.209
r_angle_other_deg 0.766
r_bond_refined_d 0.005
r_dihedral_angle_3_deg 18.958
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2987
Nucleic Acid Atoms 0
Heterogen Atoms 170
Solvent Atoms 50

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
MOLREP phasing
REFMAC refinement version: 5.2
CCP4 data scaling version: (SCALA)