3EAM

An open-pore structure of a bacterial pentameric ligand-gated ion channel


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.6298PEG 4000, NH4SCN, NaAc, pH 4.6, vapor diffusion, hanging drop, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
5.2776.66

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 183.32α = 90
b = 133.64β = 102.94
c = 160.18γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2008-03-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-20.873ESRFID23-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.9250.10111.343.983260
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.93.060.6262.053.9

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 DIFFRACTIONTHROUGHOUT2.91077236406399.970.200460.198850.2311RANDOM52.815
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]
-0.3-60.43-2.83
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.548
r_dihedral_angle_4_deg20.161
r_dihedral_angle_3_deg19.272
r_dihedral_angle_1_deg7.107
r_scangle_it4.996
r_scbond_it2.765
r_angle_refined_deg2.034
r_mcangle_it1.7
r_mcbond_it0.851
r_chiral_restr0.118
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.548
r_dihedral_angle_4_deg20.161
r_dihedral_angle_3_deg19.272
r_dihedral_angle_1_deg7.107
r_scangle_it4.996
r_scbond_it2.765
r_angle_refined_deg2.034
r_mcangle_it1.7
r_mcbond_it0.851
r_chiral_restr0.118
r_bond_refined_d0.022
r_gen_planes_refined0.008
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
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_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms12625
Nucleic Acid Atoms
Solvent Atoms111
Heterogen Atoms769

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction