X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 298.0
Details MMP12 at 4mg/ml co-crystallization with AHA and non-chelating inhibitor with precipitant: 19% PEG 10K, 0.2M imidazole malate, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.09 α = 90
b = 62.82 β = 90
c = 37.55 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 2009-02-05
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.855 SOLEIL PROXIMA 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
1.31 32.99 100.0 0.101 0.107 -- 9.2 39828 39828 1.0 2.0 --
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)
1.31 1.38 100.0 0.766 0.811 2.9 9.3 --

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 1.313 28.594 -- 1.44 39775 39775 1998 99.96 -- 0.1738 0.1726 0.1948 --
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 1.313 1.3458 -- 148 2643 0.2979 0.2806 -- 100.0
X Ray Diffraction 1.3458 1.3822 -- 140 2669 0.262 0.2972 -- 100.0
X Ray Diffraction 1.3822 1.4229 -- 131 2647 0.2369 0.2442 -- 100.0
X Ray Diffraction 1.4229 1.4688 -- 130 2672 0.2254 0.2216 -- 100.0
X Ray Diffraction 1.4688 1.5213 -- 144 2670 0.1936 0.2178 -- 100.0
X Ray Diffraction 1.5213 1.5822 -- 117 2689 0.1877 0.2283 -- 100.0
X Ray Diffraction 1.5822 1.6542 -- 146 2676 0.1812 0.2106 -- 100.0
X Ray Diffraction 1.6542 1.7414 -- 139 2692 0.1681 0.2352 -- 100.0
X Ray Diffraction 1.7414 1.8505 -- 140 2683 0.1649 0.1934 -- 100.0
X Ray Diffraction 1.8505 1.9934 -- 164 2676 0.155 0.1957 -- 100.0
X Ray Diffraction 1.9934 2.1939 -- 144 2700 0.147 0.1778 -- 100.0
X Ray Diffraction 2.1939 2.5112 -- 132 2757 0.1577 0.1802 -- 100.0
X Ray Diffraction 2.5112 3.1632 -- 142 2754 0.1556 0.1737 -- 100.0
X Ray Diffraction 3.1632 28.6005 -- 181 2849 0.151 0.1635 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Anisotropic B[1][1] -0.1565
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.0519
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.2084
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.09
f_plane_restr 0.019
f_chiral_restr 0.072
f_dihedral_angle_d 18.144
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1246
Nucleic Acid Atoms 0
Heterogen Atoms 59
Solvent Atoms 327

Software

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