X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop Microseeding
pH 7
Details HPLC PURIFIED SI-CRAMBIN PROTEIN WAS DISSOLVED AT 25 MG/ML IN 80% ETHANOL/WATER (V/V), AND EQUILIBRATED AGAINS 60% ETHANOL. AFTER 10 DAYS, THE RESERVOIR WAS LOWERED TO 50% AND MICROSEEDED BY THE STREAK SEEDING METHOD (CAT WHISKER). AFTER LOWERING THE RESERVOIR TO 45%, GOOD CRYSTALS WERE FORMED., pH 7., vapor diffusion - hanging drop - microseeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.76 α = 90
b = 18.4 β = 90.7
c = 22.27 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 150
Diffraction Detector
Detector Diffraction Type Details Collection Date
DIFFRACTOMETER RIGAKU COLLIMATOR 1992-10
Diffraction Radiation
Monochromator Protocol
GRAPHITE(002) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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
0.89 17.67 88.77 0.04 0.1 -- 1.0 -- 23165 -- 0.0 --
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)
0.89 0.897 74.96 0.1 0.15 3.2 0.1 --

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
ALREADY SOLVED 0.89 10.0 -- 2.0 -- 19803 -- 84.6 -- 0.147 -- -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 5.5
RMS Deviations
Key Refinement Restraint Deviation
p_special_tor 0.0
p_transverse_tor 25.6
p_staggered_tor 10.2
p_planar_tor 5.1
p_xyhbond_nbd 0.158
p_xhyhbond_nbd 0.0
p_multtor_nbd 0.16
p_bond_d 0.014
p_angle_d 0.033
p_planar_d 0.058
p_hb_or_metal_coord 0.01
p_mcbond_it 0.11
p_mcangle_it 0.11
p_scbond_it 0.136
p_scangle_it 0.136
p_plane_restr 0.01
p_chiral_restr 0.063
p_singtor_nbd 0.158
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.08
Luzzati Resolution Cutoff (Low) 17.6
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 326
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 0

Software

Computing
Computing Package Purpose
LEHMANN-LARSEN Data Reduction (intensity integration)
TEXSAN Data Reduction (data scaling)
PROLSQ Structure Refinement
Software
Software Name Purpose
PROLSQ refinement
TEXSAN data reduction
LEHMANN-LARSEN data collection