3DDC

Crystal Structure of NORE1A in Complex with RAS


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 293.0
Details 100MM C2H3NAO2, 20% PEG 2000, 250MM (NH4)2SO4, 10MM DTE, pH 4.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.6 α = 90
b = 88 β = 125
c = 56.5 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2003-07-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.933 ESRF ID14-4

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
1.78 19.59 97.2 0.086 -- -- -- -- 29894 -- 0.0 30.52
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)
1.78 1.85 86.3 0.348 -- 4.1 -- --

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 1.8 19.59 -- 0.0 -- 29320 1466 100.0 -- 0.195 0.193 0.23 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 1.8 1.85 -- 100 1912 0.232 0.359 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.8
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.03
Anisotropic B[2][2] 0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.208
r_dihedral_angle_1_deg 5.847
r_dihedral_angle_3_deg 14.958
r_symmetry_vdw_refined 0.217
r_symmetry_hbond_refined 0.196
r_dihedral_angle_2_deg 38.646
r_scangle_it 4.001
r_nbtor_refined 0.305
r_chiral_restr 0.101
r_mcangle_it 1.709
r_mcbond_it 1.041
r_angle_refined_deg 1.456
r_dihedral_angle_4_deg 20.846
r_xyhbond_nbd_refined 0.131
r_bond_refined_d 0.015
r_scbond_it 2.61
r_gen_planes_refined 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2394
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 115

Software

Software
Software Name Purpose
AMoRE phasing
REFMAC refinement version: 5.2
ADSC data collection version: Quantum
XDS data reduction
XSCALE data scaling