6F2G

Bacterial asc transporter crystal structure in open to in conformation


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4DJI4DJI, 4KRN
experimental modelPDB 4KRN4DJI, 4KRN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP277.1528%PEG400 0,1M 0,1M Ammonium acetate pH8
Crystal Properties
Matthews coefficientSolvent content
4.9475.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 85.83α = 90
b = 85.83β = 90
c = 321.69γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray80PIXELDECTRIS PILATUS3 S 6M2016-10-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.979260ALBAXALOC

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
12.9283.0598.20.0580.0650.0280.99912.65.52661511
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.923.08950.8851.1170.6730.4311.34.6

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 REPLACEMENTTHROUGHOUT4DJI, 4KRN2.9283.051913297274.120.23950.238430.26123RANDOM116.862
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]
-1.38-1.382.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg43.49
r_dihedral_angle_3_deg21.124
r_dihedral_angle_4_deg17.816
r_long_range_B_other9.086
r_long_range_B_refined9.085
r_dihedral_angle_1_deg5.764
r_mcangle_it4.805
r_mcangle_other4.804
r_scangle_other4.255
r_mcbond_it2.95
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg43.49
r_dihedral_angle_3_deg21.124
r_dihedral_angle_4_deg17.816
r_long_range_B_other9.086
r_long_range_B_refined9.085
r_dihedral_angle_1_deg5.764
r_mcangle_it4.805
r_mcangle_other4.804
r_scangle_other4.255
r_mcbond_it2.95
r_mcbond_other2.949
r_scbond_it2.532
r_scbond_other2.529
r_angle_refined_deg1.965
r_angle_other_deg1.136
r_chiral_restr0.102
r_bond_refined_d0.017
r_gen_planes_refined0.007
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4252
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
STARANISOdata scaling
autoPROCdata scaling
PHASERphasing
XDSdata reduction
pointlessdata scaling
Aimlessdata scaling