X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.1
Details THE NS3 PROTEIN (1MG/ML) WAS INCUBATE AT 4C WITH THE NS4A COFACTOR PEPTIDE, CONTAINING A SOLUBIZING LYSINE TAG AT ITS N- AND C-TERMINI(KGSVVIVGRIILSGRK), AT A MOLAR RATIO OF 1:2 AND CONCENTRATED TO 290 MICROMOLAR. NS3J/4A CRYSTAL WITH A MAXIMUM SIZE OF 0.6 X 0.3 X 0.2 MM**3, WERE OBTAINED BY BOTH HANGING- AND SITTING-DROP VAPOUR DIFFUSION METHODS AFTER TW WEEKS AT ROOM TEMPERATURE, WITH 3.4 M NACL, 10MM DTT, 0.1 M CITR BUFFER PH 5.1. THE TERNARY COMPLEX WITH INHIBITOR WAS PREPARED B ADDING 2.5 MM OF INIBITOR TO CRYSTALS THAT WERE STABILISED IN 4.5 M NACL, 10 MM DTT, 0.1 M CITRATE BUFFER, PH 5.1., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.82 α = 90
b = 93.82 β = 90
c = 80.95 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH BENT MIRROR 1998-08-15
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X31 -- EMBL/DESY, Hamburg X31

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
2.4 20 99.8 -- 0.137 -- 3.5 -- 15872 -- -3.0 40.68
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)
2.4 2.53 99.8 -- 0.425 1.7 3.4 --

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 2.4 20.0 -- 0.0 -- 15872 788 99.8 -- 0.216 0.221 0.318 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.4
RMS Deviations
Key Refinement Restraint Deviation
p_scbond_it 10.1
p_xyhbond_nbd 0.233
p_mcbond_it 4.98
p_scangle_it 10.52
p_multtor_nbd 0.284
p_mcangle_it 6.61
p_plane_restr 0.014
p_chiral_restr 0.12
p_planar_tor 7.8
p_bond_d 0.009
p_angle_d 0.032
p_singtor_nbd 0.21
p_planar_d 0.034
p_staggered_tor 21.4
p_transverse_tor 29.3
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2734
Nucleic Acid Atoms 0
Heterogen Atoms 74
Solvent Atoms 95

Software

Software
Software Name Purpose
REFMAC refinement
DENZO data reduction
SCALA data scaling
AMoRE phasing