X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 10% PEG 8000, 5% iso-propanol, 0.1M HEPES, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.78 α = 90
b = 68.08 β = 91.42
c = 94.35 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 MAR scanner 300 mm plate -- 2011-06-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM -- APS 22-BM

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
1.94 26.39 95.4 0.058 0.062 -- 4.4 61307 58230 0.0 0.0 35.88
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)
1.94 1.97 63.4 0.33 0.393 2.23 2.6 --

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 1.94 26.39 -- 1.35 61022 58216 2944 95.4 -- 0.1829 0.1811 0.2152 --
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 1.939 1.9708 -- 89 1729 0.2567 0.2844 -- 63.0
X Ray Diffraction 1.9708 2.0047 -- 128 2131 0.2474 0.2671 -- 77.0
X Ray Diffraction 2.0047 2.0412 -- 119 2386 0.2419 0.2796 -- 88.0
X Ray Diffraction 2.0412 2.0804 -- 127 2544 0.2301 0.2669 -- 93.0
X Ray Diffraction 2.0804 2.1229 -- 123 2690 0.2262 0.2955 -- 97.0
X Ray Diffraction 2.1229 2.169 -- 147 2668 0.2166 0.2948 -- 99.0
X Ray Diffraction 2.169 2.2194 -- 139 2736 0.2075 0.2204 -- 99.0
X Ray Diffraction 2.2194 2.2749 -- 166 2710 0.1969 0.2379 -- 99.0
X Ray Diffraction 2.2749 2.3364 -- 137 2729 0.2043 0.2346 -- 100.0
X Ray Diffraction 2.3364 2.4051 -- 150 2771 0.2022 0.2664 -- 100.0
X Ray Diffraction 2.4051 2.4827 -- 152 2709 0.2164 0.2669 -- 99.0
X Ray Diffraction 2.4827 2.5713 -- 142 2722 0.2063 0.2521 -- 100.0
X Ray Diffraction 2.5713 2.6742 -- 147 2747 0.1958 0.2497 -- 100.0
X Ray Diffraction 2.6742 2.7958 -- 164 2735 0.2013 0.227 -- 100.0
X Ray Diffraction 2.7958 2.943 -- 134 2781 0.1922 0.2372 -- 100.0
X Ray Diffraction 2.943 3.1271 -- 125 2773 0.189 0.2638 -- 100.0
X Ray Diffraction 3.1271 3.3681 -- 165 2718 0.1802 0.1952 -- 100.0
X Ray Diffraction 3.3681 3.7062 -- 151 2722 0.1679 0.1957 -- 99.0
X Ray Diffraction 3.7062 4.2406 -- 157 2750 0.1584 0.1938 -- 99.0
X Ray Diffraction 4.2406 5.3355 -- 139 2779 0.1454 0.1691 -- 99.0
X Ray Diffraction 5.3355 26.3926 -- 143 2742 0.1755 0.1982 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.4834
Anisotropic B[1][1] 3.7219
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -4.7081
Anisotropic B[2][2] 1.6299
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.3518
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.052
f_dihedral_angle_d 14.703
f_angle_d 0.856
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5308
Nucleic Acid Atoms 0
Heterogen Atoms 386
Solvent Atoms 378

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASES Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement