X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.8
Temperature 277.0
Details Cacodylate, MPD, rhodium(iii) hexammine, pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.73 α = 90
b = 19.39 β = 105.7
c = 45.83 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Si(111) 1998-10-08
Diffraction Radiation
Monochromator Protocol
curvated Si(111) mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LURE BEAMLINE DW32 0.967 LURE DW32

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
1.6 11 98.0 0.041 0.045 -- 9.0 4425 4339 2.0 4.0 18.0
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)
1.6 1.7 76.0 0.141 0.16 4.1 5.0 786

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 1.6 11.0 4.0 2.0 4425 4339 410 98.0 0.155 0.153 0.156 0.195 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 1.6 1.7 -- 64 -- 0.181 0.2 0.02 76.9
X Ray Diffraction 1.7 1.8 -- 65 -- 0.166 0.198 0.02 74.8
X Ray Diffraction 1.8 2.0 -- 95 -- 0.165 0.195 0.02 77.6
X Ray Diffraction 2.0 3.0 -- 135 -- 0.156 0.19 0.02 69.1
X Ray Diffraction 3.0 5.0 -- 42 -- 0.117 0.2 0.02 54.4
X Ray Diffraction 5.0 11.0 -- 9 -- 0.13 0.22 0.02 42.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic, the rhodium atoms were anisotropically refined
RMS Deviations
Key Refinement Restraint Deviation
s_non_zero_chiral_vol 0.074
s_angle_d 0.027
s_bond_d 0.013
s_from_restr_planes 0.02
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 385
Heterogen Atoms 19
Solvent Atoms 50

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
AMoRE phasing
SHELXL-97 refinement
CCP4 data scaling version: (SCALA)