X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.8
Temperature 277.0
Details PEG 8000, ammonium sulfate, sucrose, glycerol, magnesium chloride, Bis-Tris propane , pH 6.8, VAPOR DIFFUSION, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.82 α = 90
b = 132.05 β = 100.84
c = 142.73 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 mirror 2011-03-13
Diffraction Radiation
Monochromator Protocol
Rh coated Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.918 CHESS F1

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
2.85 40 99.0 0.09 -- -- 3.6 -- 75389 -- -1.0 --
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)
2.85 2.9 97.7 0.618 -- -- 2.9 3706

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 2.8503 38.413 -- 0.0 -- 75359 2287 98.68 -- 0.252 0.2505 0.298 --
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 2.8503 2.9123 -- 121 4322 0.3912 0.4495 -- 93.0
X Ray Diffraction 2.9123 2.98 -- 135 4517 0.3635 0.428 -- 98.0
X Ray Diffraction 2.98 3.0545 -- 151 4544 0.3502 0.3582 -- 99.0
X Ray Diffraction 3.0545 3.137 -- 137 4582 0.3325 0.3543 -- 99.0
X Ray Diffraction 3.137 3.2293 -- 149 4529 0.3066 0.3405 -- 99.0
X Ray Diffraction 3.2293 3.3335 -- 163 4595 0.2904 0.3453 -- 99.0
X Ray Diffraction 3.3335 3.4525 -- 142 4614 0.2735 0.342 -- 100.0
X Ray Diffraction 3.4525 3.5907 -- 151 4590 0.2595 0.3284 -- 100.0
X Ray Diffraction 3.5907 3.754 -- 138 4619 0.2456 0.2657 -- 100.0
X Ray Diffraction 3.754 3.9517 -- 141 4574 0.2278 0.2709 -- 100.0
X Ray Diffraction 3.9517 4.199 -- 151 4605 0.211 0.2565 -- 100.0
X Ray Diffraction 4.199 4.5228 -- 157 4616 0.2026 0.2497 -- 100.0
X Ray Diffraction 4.5228 4.977 -- 145 4634 0.2035 0.2653 -- 100.0
X Ray Diffraction 4.977 5.6952 -- 134 4639 0.2146 0.2698 -- 100.0
X Ray Diffraction 5.6952 7.1677 -- 129 4659 0.2507 0.3282 -- 100.0
X Ray Diffraction 7.1677 38.4166 -- 143 4433 0.2249 0.2658 -- 93.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 82.9103
Anisotropic B[1][1] -2.1261
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.7078
Anisotropic B[2][2] 5.1163
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.9902
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 18.556
f_plane_restr 0.007
f_chiral_restr 0.091
f_angle_d 1.337
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15824
Nucleic Acid Atoms 1646
Heterogen Atoms 40
Solvent Atoms 0

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction