4N5X

Crystal structure of N-terminal calmodulin-like Calcium sensor of human mitochondrial ATP-Mg/Pi carrier SCaMC1


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9.1
Temperature 298.0
Details 100 mM CHES (pH 9.1) and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.21 α = 90
b = 51.21 β = 90
c = 112.15 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2012-05-04
Diffraction Radiation
Monochromator Protocol
Xenocs mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE BRUKER AXS MICROSTAR 1.5418 -- --

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
2.1 20 99.73 -- -- -- -- 10500 10443 -- 2.0 --
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)
2.1 2.17 99.2 -- -- -- -- --

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 2.1 19.072 -- 1.34 10500 10443 1044 99.73 -- 0.1818 0.1767 0.2253 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 2.1 2.2093 -- 146 1313 0.1496 0.2175 -- 100.0
X Ray Diffraction 2.2093 2.3475 -- 143 1296 0.2198 0.2972 -- 98.0
X Ray Diffraction 2.3475 2.5284 -- 148 1313 0.1745 0.2396 -- 100.0
X Ray Diffraction 2.5284 2.7821 -- 150 1324 0.1849 0.2313 -- 100.0
X Ray Diffraction 2.7821 3.1831 -- 152 1355 0.1966 0.2766 -- 100.0
X Ray Diffraction 3.1831 4.0042 -- 149 1355 0.164 0.2157 -- 100.0
X Ray Diffraction 4.0042 19.0727 -- 156 1443 0.1677 0.1794 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.151
f_plane_restr 0.003
f_bond_d 0.007
f_dihedral_angle_d 16.923
f_chiral_restr 0.087
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1250
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 124

Software

Software
Software Name Purpose
HKL-2000 data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.8_1069)
HKL-2000 data reduction
HKL-2000 data scaling