X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.4
Details PROTEIN WAS CRYSTALLIZED FROM 30% PEG 4000, 10% GLYCEROL, 100 MM TRIS, PH 7.4, 100MM MGCL2, 20 MG/ML PROTEIN

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.18 α = 90
b = 78.34 β = 90
c = 60.6 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 123
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH TOROIDAL MIRROR 1997-03
Diffraction Radiation
Monochromator Protocol
SI(111) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 -- EMBL/DESY, HAMBURG X11

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
1.75 11 99.9 -- 0.044 -- 5.0 -- 21775 -- -- 19.2
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)
1.75 1.81 99.1 -- 0.204 7.74 4.5 --

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
MAD 1.85 11.0 -- 0.0 18431 18431 1911 99.9 -- 0.193 0.195 0.253 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.6
RMS Deviations
Key Refinement Restraint Deviation
p_special_tor 0.0
p_transverse_tor 29.4
p_staggered_tor 19.4
p_planar_tor 4.2
p_xyhbond_nbd 0.189
p_xhyhbond_nbd 0.0
p_multtor_nbd 0.262
p_bond_d 0.012
p_angle_d 0.015
p_mcbond_it 2.08
p_mcangle_it 2.814
p_scbond_it 2.943
p_scangle_it 4.112
p_plane_restr 0.0243
p_chiral_restr 0.128
p_singtor_nbd 0.185
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Resolution Cutoff (Low) 11.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1592
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 167

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
DM, HEAVY, MLPHARE Structure Solution
CCP4 Structure Refinement
Software
Software Name Purpose
CCP4 refinement
MLPHARE model building
HEAVY model building
DM model building