3CLS

Crystal structure of the R236C mutant of ETF from Methylophilus methylotrophus


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1O97 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.2limited digest with trypsin, 2.0 M sodium phosphate, pH 6.2, VAPOR DIFFUSION, HANGING DROP
Crystal Properties
Matthews coefficientSolvent content
2.754.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 117.528α = 90
b = 117.528β = 90
c = 84.846γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102005-04-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-1ESRFID14-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
11.652095.60.0847.33.87232772327

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT1O971.652072327383695.570.164820.163410.19121RANDOM14.334
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]
0.840.420.84-1.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.445
r_dihedral_angle_4_deg19.887
r_dihedral_angle_3_deg13.973
r_dihedral_angle_1_deg6.567
r_scangle_it4.011
r_scbond_it2.687
r_angle_refined_deg1.841
r_mcangle_it1.581
r_mcbond_it1.155
r_angle_other_deg0.93
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.445
r_dihedral_angle_4_deg19.887
r_dihedral_angle_3_deg13.973
r_dihedral_angle_1_deg6.567
r_scangle_it4.011
r_scbond_it2.687
r_angle_refined_deg1.841
r_mcangle_it1.581
r_mcbond_it1.155
r_angle_other_deg0.93
r_mcbond_other0.341
r_symmetry_vdw_other0.261
r_nbd_refined0.239
r_nbd_other0.199
r_xyhbond_nbd_refined0.184
r_nbtor_refined0.177
r_symmetry_hbond_refined0.175
r_chiral_restr0.118
r_symmetry_vdw_refined0.112
r_nbtor_other0.089
r_bond_refined_d0.019
r_gen_planes_refined0.008
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4231
Nucleic Acid Atoms
Solvent Atoms693
Heterogen Atoms76

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
DENZOdata reduction
SCALEPACKdata scaling