X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.75
Temperature 277.0
Details PEG 3350, Sodium Chloride, CHAPS, ATP, Magnesium Chloride, Mastoparan , MES pH 5.75, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 188.2 α = 90
b = 72.5 β = 115.2
c = 122.79 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Osmic confocal Max-flux 2002-06-15
CCD ADSC QUANTUM 210 -- 2002-07-17
Diffraction Radiation
Monochromator Protocol
double crystal si(111) SINGLE WAVELENGTH
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200H 1.5418 -- --
SYNCHROTRON ALS BEAMLINE 8.2.1 1.000 ALS 8.2.1

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
2.5 20 73.6 -- 0.05 -- 2.4 135084 56160 -2.0 -2.0 37.42
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)
2.5 2.59 12.7 -- 0.253 2.7 0.67 1977

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 2.5 20.0 -- -2.0 38249 36307 1942 73.62 0.2164 0.21648 0.20223 0.25196 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 2.5 2.564 413 0 413 0.279 0.413 -- 12.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model TLS refinement
Mean Isotropic B 27.933
Anisotropic B[1][1] -6.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -6.28
Anisotropic B[2][2] 8.91
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.22
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.169
r_nbd_other 0.244
r_scangle_it 4.124
r_bond_other_d 0.002
r_symmetry_hbond_refined 0.237
r_mcbond_it 0.894
r_mcangle_it 1.691
r_xyhbond_nbd_refined 0.196
r_angle_other_deg 1.007
r_symmetry_vdw_other 0.247
r_scbond_it 2.529
r_gen_planes_other 0.005
r_bond_refined_d 0.024
r_gen_planes_refined 0.008
r_angle_refined_deg 2.035
r_nbd_refined 0.232
r_chiral_restr 0.103
r_nbtor_other 0.099
r_symmetry_vdw_refined 0.164
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8125
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 26

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing