X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4
Temperature 291.0
Details HANGING DROP VAPOUR DIFFUSION WITH PROTEIN CONCENTRATION IN THE RANGE 10-15 MG/ML IN 10MM TRIS-HCL PH 7.0. 1 OR 2 MICROLITER DROPS OF THE LATTER WERE MIXED WITH AN EQUAL VOLUME OF 11-14% (W/V) PEG 4000 AND 0.4M AMMONIUM SULFATE IN 0.1M ACETATE BUFFER AT PH 4.0, AND THEN EQUILIBRATED AGAINST THIS SOLUTION AT 18 DEG C. CRYOPROTECTED USING THE SAME SOLUTION CONTAINING 25% (V/V) ETHYLENE GLYCOL., vapor diffusion - hanging drop, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 32.93 α = 90
b = 88.8 β = 93.55
c = 41.75 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 1996-09
Diffraction Radiation
Monochromator Protocol
-- --
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
1.2 100 99.4 0.094 -- -- 3.7 -- 74061 -- 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)
1.2 1.22 99.1 0.161 -- 6.9 3.2 --

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
SINGLE ISOMORPHOUS REPLACEMENT WITH ANOMALOUS SCATTERING 1.2 40.0 -- 0.0 -- 74061 3730 99.4 -- -- 0.1644 0.183 RANDOM
RMS Deviations
Key Refinement Restraint Deviation
p_transverse_tor 23.7
p_staggered_tor 13.8
p_planar_tor 4.0
p_xyhbond_nbd 0.148
p_multtor_nbd 0.246
p_bond_d 0.007
p_angle_d 0.02
p_planar_d 0.026
p_mcbond_it 1.164
p_mcangle_it 1.627
p_scbond_it 2.304
p_scangle_it 3.171
p_plane_restr 0.225
p_chiral_restr 0.08
p_singtor_nbd 0.165
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1721
Nucleic Acid Atoms 0
Heterogen Atoms 22
Solvent Atoms 355

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CCP4 (MLPHARE, DM, OTHERS), O Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
O model building
DM) model building
VARIOUS version: CCP4 PROGRAMS (INCLUDING MLPHARE model building