X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 298.0
Details MMP12 at 4mg/ml co-crystallization with non-chelating inhibitor with precipitant: 22% PEG 3350, 100mM Glycine., pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69 α = 90
b = 63.17 β = 90
c = 37.57 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2008-06-14
Diffraction Radiation
Monochromator Protocol
Single Silicon (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.97625 ESRF ID23-1

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
1.9 69 99.5 0.128 0.059 -- 5.7 13486 13419 1.0 2.0 14.58
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)
1.9 2.0 100.0 0.534 0.589 4.2 5.8 1933

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
rigid body 1.9 46.592 -- 1.39 -- 13391 660 99.13 -- 0.161 0.1586 0.2105 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 1.9001 2.0468 -- 147 2496 0.1814 0.2393 -- 100.0
X Ray Diffraction 2.0468 2.2527 -- 121 2529 0.1537 0.1799 -- 100.0
X Ray Diffraction 2.2527 2.5787 -- 129 2526 0.1469 0.2156 -- 100.0
X Ray Diffraction 2.5787 3.2488 -- 145 2543 0.1504 0.1999 -- 99.0
X Ray Diffraction 3.2488 46.6065 -- 118 2637 0.1605 0.2069 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 17.788
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 18.163
f_plane_restr 0.005
f_chiral_restr 0.081
f_angle_d 1.167
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1246
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 205

Software

Software
Software Name Purpose
DNA data collection
REFMAC refinement
PHENIX refinement version: (phenix.refine)
MOSFLM data reduction
SCALA data scaling
REFMAC phasing