X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.8
Details CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.53 α = 90
b = 47.21 β = 107.04
c = 97.84 γ = 90
Symmetry
Space Group P 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MIRRORS 2001-07-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
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
2 33.5 99.1 0.044 -- -- 3.1 -- 56957 -- -- 15.5
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)
2.0 2.15 99.0 0.219 -- 2.4 3.0 --

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 2.0 33.57 -- 0.0 -- 56957 5786 98.7 -- 0.228 0.228 0.259 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 2.0 2.13 -- 949 8582 0.27 0.296 0.01 99.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 35.1
Anisotropic B[1][1] 4.86
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 5.56
Anisotropic B[2][2] 2.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.04
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.72
c_angle_deg 1.3
c_mcangle_it 2.51
c_scbond_it 2.03
c_dihedral_angle_d 25.9
c_scangle_it 3.02
c_bond_d 0.006
c_mcbond_it 1.56
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.2
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3
Luzzati Sigma A (R-Free Set) 0.24
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6168
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 103

Software

Software
Software Name Purpose
CNS refinement version: 1.1
MOSFLM data reduction
SCALA data scaling
AMoRE phasing