X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 292.0
Details PEG4000, MAGNESIUM CHLORIDE, ACETATE, GLYCEROL , pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 292.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.37 α = 90
b = 37.84 β = 117.18
c = 58.02 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 MIRROR 2000-11-12
Diffraction Radiation
Monochromator Protocol
SILICON 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9B 0.96394 NSLS X9B

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
1.25 30 99.6 0.092 -- -- 3.211 39345 39345 0.0 0.0 12.3
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)
1.25 1.29 99.0 0.571 -- 1.678 3.079 3863

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 1.25 30.0 2.0 4.0 37252 26465 1932 94.6 0.1337 0.0968 0.1066 0.1319 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 1.25 1.33 3791 -- -- 0.192 -- -- --
X Ray Diffraction 1.33 1.41 3781 -- -- 0.157 -- -- --
X Ray Diffraction 1.41 1.51 3716 -- -- 0.132 -- -- --
X Ray Diffraction 1.51 1.63 3681 -- -- 0.101 -- -- --
X Ray Diffraction 1.63 1.79 3716 -- -- 0.087 -- -- --
X Ray Diffraction 1.79 2.02 3646 -- -- 0.082 -- -- --
X Ray Diffraction 2.02 2.43 3788 -- -- 0.079 -- -- --
X Ray Diffraction 2.43 3.7 3666 -- -- 0.084 -- -- --
X Ray Diffraction 3.7 30.0 1480 -- -- 0.14 -- -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ANISOTROPIC
Mean Isotropic B 15.307
RMS Deviations
Key Refinement Restraint Deviation
s_approx_iso_adps 0.079
s_similar_adp_cmpnt 0.044
s_rigid_bond_adp_cmpnt 0.016
s_anti_bump_dis_restr 0.199
s_non_zero_chiral_vol 0.143
s_zero_chiral_vol 0.156
s_from_restr_planes 0.031
s_similar_dist 0.0
s_angle_d 0.027
s_bond_d 0.011
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.096
Luzzati Resolution Cutoff (Low) 5.0
Number Disordered Residues 9.0
Occupancy Sum Hydrogen 1297.0
Occupancy Sum Non Hydrogen 1644.5
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1261
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 332

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
SHELXL-97 refinement
AMORE model building
SCALEPACK data reduction
DENZO data collection