X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 1.25M AMMONIUM SULFATE, 100MM HEPES PH7.5, 6% PEG400, 1MM IRON (II) SULFATE, 20MM SUCCINIC ACID, pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.61 α = 90
b = 86.61 β = 90
c = 145.94 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2005-08-28
Diffraction Radiation
Monochromator Protocol
SI SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 -- NSLS X25

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
2.4 34 99.1 0.12 -- -- 13.1 -- 767064 -- 0.0 --
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)
2.4 2.49 100.0 0.66 -- 5.5 13.0 --

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 2.4 74.54 -- -- -- 19862 2191 98.3 -- 0.21 0.205 0.263 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 2.4 2.46 -- 131 1337 0.316 0.366 -- 90.73
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 58.95
Anisotropic B[1][1] -0.54
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.54
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.08
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.295
r_mcangle_it 1.843
r_xyhbond_nbd_refined 0.195
r_mcbond_other 0.329
r_dihedral_angle_4_deg 17.629
r_gen_planes_other 0.002
r_nbd_refined 0.237
r_xyhbond_nbd_other 0.054
r_angle_refined_deg 2.13
r_scbond_it 3.137
r_nbd_other 0.215
r_chiral_restr 0.141
r_symmetry_vdw_other 0.304
r_nbtor_refined 0.197
r_scangle_it 4.311
r_dihedral_angle_1_deg 7.988
r_dihedral_angle_3_deg 18.057
r_mcbond_it 1.522
r_gen_planes_refined 0.01
r_dihedral_angle_2_deg 40.642
r_symmetry_vdw_refined 0.237
r_angle_other_deg 1.129
r_bond_refined_d 0.028
r_bond_other_d 0.002
r_nbtor_other 0.1
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2763
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 61

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
DENZO data reduction
SCALEPACK data scaling
CNS phasing