X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 293.0
Details PEG 4000, sodium citrate buffer, sodium ampicillin, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 341.83 α = 90
b = 341.83 β = 90
c = 341.83 γ = 90
Symmetry
Space Group I 2 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH premirror, triangular monochromator, bent mirror 2002-11-18
Diffraction Radiation
Monochromator Protocol
triangular SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8463 EMBL/DESY, Hamburg BW7B

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
2.2 99 97.2 -- 0.081 -- 4.5 322911 322911 1.0 1.0 --
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)
2.2 2.28 98.9 -- 0.322 -- -- --

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 2.2 15.0 -- 1.0 322911 304675 16078 96.9 0.16698 0.16618 0.16608 0.18386 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 2.2 2.256 -- 1230 22491 0.21 0.234 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.609
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.002
r_bond_refined_d 0.007
r_dihedral_angle_1_deg 2.21
r_nbd_refined 0.172
r_scbond_it 3.642
r_symmetry_vdw_refined 0.121
r_mcbond_it 1.309
r_angle_refined_deg 1.064
r_symmetry_hbond_refined 0.148
r_chiral_restr 0.075
r_mcangle_it 2.212
r_xyhbond_nbd_refined 0.101
r_scangle_it 5.286
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19528
Nucleic Acid Atoms 0
Heterogen Atoms 120
Solvent Atoms 2229

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing