5ADL

Structure of bovine endothelial nitric oxide synthase heme domain in complex with 7-((3-(Methylamino)methyl)phenoxy)methyl)quinolin-2- amine


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details 20-22% PEG3350 0.1M CACODYLATE, 140-200 MM MG ACETATE 5 MM TCEP, pH 6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.96 α = 90
b = 106.32 β = 90
c = 157.38 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M MIRRORS 2014-07-30
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 -- SSRL BL12-2

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
2.21 50 99.3 0.12 -- -- 5.5 -- 49484 -- -3.0 48.33
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)
2.21 2.24 97.2 1.5 -- 0.7 4.9 --

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 2.205 39.176 -- 1.02 -- 48832 4606 97.73 -- 0.1627 0.1604 0.2059 --
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 2.2054 2.2304 -- 89 1887 0.3446 0.3663 -- 63.0
X Ray Diffraction 2.2304 2.2566 -- 148 2899 0.3255 0.3589 -- 97.0
X Ray Diffraction 2.2566 2.2842 -- 145 2963 0.3188 0.352 -- 98.0
X Ray Diffraction 2.2842 2.3131 -- 145 3003 0.3183 0.3467 -- 99.0
X Ray Diffraction 2.3131 2.3435 -- 155 2947 0.3041 0.3246 -- 99.0
X Ray Diffraction 2.3435 2.3756 -- 155 2954 0.2967 0.3427 -- 99.0
X Ray Diffraction 2.3756 2.4095 -- 170 2983 0.2986 0.3364 -- 100.0
X Ray Diffraction 2.4095 2.4455 -- 156 2931 0.2848 0.3838 -- 99.0
X Ray Diffraction 2.4455 2.4837 -- 165 2954 0.2756 0.2809 -- 99.0
X Ray Diffraction 2.4837 2.5244 -- 181 3001 0.2607 0.3076 -- 99.0
X Ray Diffraction 2.5244 2.5679 -- 171 2937 0.2509 0.2934 -- 99.0
X Ray Diffraction 2.5679 2.6146 -- 170 3001 0.2355 0.2594 -- 99.0
X Ray Diffraction 2.6146 2.6649 -- 154 2955 0.225 0.2944 -- 99.0
X Ray Diffraction 2.6649 2.7193 -- 155 2975 0.2178 0.2688 -- 99.0
X Ray Diffraction 2.7193 2.7784 -- 148 2958 0.2136 0.2469 -- 99.0
X Ray Diffraction 2.7784 2.843 -- 120 3013 0.1985 0.2898 -- 99.0
X Ray Diffraction 2.843 2.9141 -- 143 3052 0.1777 0.2265 -- 100.0
X Ray Diffraction 2.9141 2.9929 -- 160 2924 0.1627 0.2185 -- 100.0
X Ray Diffraction 2.9929 3.0809 -- 172 2997 0.1651 0.1947 -- 100.0
X Ray Diffraction 3.0809 3.1803 -- 155 3000 0.1508 0.1844 -- 100.0
X Ray Diffraction 3.1803 3.2939 -- 147 3006 0.1521 0.2576 -- 99.0
X Ray Diffraction 3.2939 3.4257 -- 164 2984 0.1336 0.2016 -- 99.0
X Ray Diffraction 3.4257 3.5815 -- 147 2965 0.1292 0.1648 -- 99.0
X Ray Diffraction 3.5815 3.7702 -- 164 2954 0.1236 0.1672 -- 99.0
X Ray Diffraction 3.7702 4.0062 -- 146 2942 0.1223 0.1728 -- 98.0
X Ray Diffraction 4.0062 4.3152 -- 158 2930 0.1159 0.1715 -- 98.0
X Ray Diffraction 4.3152 4.7487 -- 163 2968 0.1082 0.1453 -- 99.0
X Ray Diffraction 4.7487 5.4343 -- 121 2984 0.122 0.2081 -- 98.0
X Ray Diffraction 5.4343 6.8408 -- 166 2915 0.1407 0.1511 -- 98.0
X Ray Diffraction 6.8408 39.1826 -- 173 2909 0.1349 0.1672 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 16.3
f_chiral_restr 0.072
f_bond_d 0.009
f_angle_d 1.205
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6451
Nucleic Acid Atoms 0
Heterogen Atoms 193
Solvent Atoms 337

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
Aimless data scaling
REFMAC phasing