X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Details pH 7.00, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.78 α = 90
b = 84.61 β = 90
c = 65.73 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAC Science DIP-2000 -- 2002-09-11
Diffraction Radiation
Monochromator Protocol
MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU -- -- --

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
1.65 22.19 98.3 -- -- -- -- 29034 29034 -3.0 -3.0 --
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)
1.645 1.688 93.92 -- -- -- -- --

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 1.65 22.19 -- -- 29034 26140 2894 97.77 0.20167 0.20167 0.19806 0.23396 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 1.645 1.688 -- 211 1797 0.263 0.316 -- 93.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.03
Anisotropic B[1][1] -1.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.53
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.597
r_scbond_it 4.044
r_mcangle_it 2.596
r_mcbond_other 0.534
r_mcbond_it 2.146
r_nbd_refined 0.244
r_gen_planes_other 0.0
r_gen_planes_refined 0.001
r_chiral_restr 0.141
r_dihedral_angle_4_deg 18.589
r_dihedral_angle_3_deg 15.438
r_dihedral_angle_2_deg 35.198
r_dihedral_angle_1_deg 5.733
r_angle_other_deg 1.975
r_angle_refined_deg 2.297
r_bond_other_d 0.003
r_bond_refined_d 0.027
r_nbd_other 0.227
r_nbtor_refined 0.189
r_nbtor_other 0.099
r_xyhbond_nbd_refined 0.201
r_symmetry_vdw_refined 0.197
r_symmetry_vdw_other 0.253
r_symmetry_hbond_refined 0.358
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1768
Nucleic Acid Atoms 0
Heterogen Atoms 39
Solvent Atoms 184

Software

Computing
Computing Package Purpose
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
AMORE model building
SCALEPACK data reduction