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_scangle_it 1.722
r_scbond_it 0.957
r_mcangle_it 0.773
r_mcbond_other 0.067
r_mcbond_it 0.688
r_nbd_refined 0.209
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.078
r_dihedral_angle_4_deg 23.189
r_dihedral_angle_3_deg 18.958
r_dihedral_angle_2_deg 35.718
r_dihedral_angle_1_deg 7.16
r_angle_other_deg 0.766
r_angle_refined_deg 1.473
r_bond_other_d 0.001
r_bond_refined_d 0.005
r_nbd_other 0.186
r_nbtor_refined 0.189
r_nbtor_other 0.089
r_xyhbond_nbd_refined 0.178
r_symmetry_vdw_refined 0.11
r_symmetry_vdw_other 0.204
r_symmetry_hbond_refined 0.17
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

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2 refinement
MOLREP model building
SCALA data reduction
MOSFLM data collection