2W5J

Structure of the c14-rotor ring of the proton translocating chloroplast ATP synthase


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1YCEPDB ENTRY 1YCE

Crystallization

Crystal Properties
Matthews coefficientSolvent content
3.6465.94

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 128.601α = 90
b = 89.996β = 104.7
c = 124.893γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rrim I (All)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
13.84.0192.20.0854.12.6126553.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
3.84.0192.20.2483.32.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1YCE3.819.751199962892.50.3180.3170.335RANDOM52.46
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]
0.321.01-0.941.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.83
r_dihedral_angle_4_deg19.045
r_dihedral_angle_3_deg17.478
r_dihedral_angle_1_deg6.98
r_angle_refined_deg1.284
r_angle_other_deg0.927
r_scangle_it0.277
r_mcangle_it0.238
r_scbond_it0.149
r_mcbond_it0.128
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.83
r_dihedral_angle_4_deg19.045
r_dihedral_angle_3_deg17.478
r_dihedral_angle_1_deg6.98
r_angle_refined_deg1.284
r_angle_other_deg0.927
r_scangle_it0.277
r_mcangle_it0.238
r_scbond_it0.149
r_mcbond_it0.128
r_chiral_restr0.082
r_bond_refined_d0.013
r_gen_planes_refined0.008
r_bond_other_d0.002
r_gen_planes_other0.002
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6860
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing
PHASERphasing
REFMACrefinement