5OXZ

Crystal Structure of NeqN/NeqC complex from Nanoarcheaum equitans at 1.2A


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2931.1 M Di-Ammonium Tartrate pH7
Crystal Properties
Matthews coefficientSolvent content
2.3748.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.67α = 90
b = 45.67β = 90
c = 254.412γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray78PIXELDECTRIS PILATUS 6M2016-12-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.97929ALBAXALOC

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.242.4199.916.212.251160
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.21.2699.9412.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONAB INITIO PHASINGTHROUGHOUT1.242.448536248299.920.138230.137310.15628RANDOM16.092
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.04-0.02-0.040.13
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.951
r_dihedral_angle_2_deg35.001
r_dihedral_angle_4_deg17.292
r_dihedral_angle_3_deg12.841
r_sphericity_bonded9.751
r_dihedral_angle_1_deg9.042
r_rigid_bond_restr5.922
r_long_range_B_refined4.889
r_long_range_B_other4.508
r_scangle_other4.421
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.951
r_dihedral_angle_2_deg35.001
r_dihedral_angle_4_deg17.292
r_dihedral_angle_3_deg12.841
r_sphericity_bonded9.751
r_dihedral_angle_1_deg9.042
r_rigid_bond_restr5.922
r_long_range_B_refined4.889
r_long_range_B_other4.508
r_scangle_other4.421
r_scbond_it3.728
r_scbond_other3.682
r_angle_refined_deg2.672
r_mcangle_other2.452
r_mcangle_it2.425
r_mcbond_it2.189
r_mcbond_other2.01
r_angle_other_deg1.253
r_chiral_restr0.201
r_bond_refined_d0.033
r_gen_planes_refined0.013
r_bond_other_d0.003
r_gen_planes_other0.003
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1007
Nucleic Acid Atoms
Solvent Atoms151
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
Arcimboldophasing