X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4ACYPDB ENTRY 4ACY

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.50.125 M AMMONIUM HYDROGEN CITRATE, 20% W/V PEG 3350, 0.1 M MES PH 5.5, 5 MM TCEP
Crystal Properties
Matthews coefficientSolvent content
2.4750.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.748α = 103.49
b = 62.689β = 104.06
c = 71.6γ = 93.21
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2010-04-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-2ESRFID23-2

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
125092.10.0812.62.645929219
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)
122.0776.60.312.32

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 4ACY1.9945.6645929246385.860.185670.183750.22153RANDOM21.159
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]
0.09-0.160.12-0.050.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.974
r_dihedral_angle_3_deg14.104
r_dihedral_angle_4_deg11.967
r_dihedral_angle_1_deg6.253
r_angle_refined_deg1.269
r_mcangle_it1.269
r_nbtor_refined0.31
r_symmetry_vdw_refined0.232
r_nbd_refined0.207
r_symmetry_hbond_refined0.189
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.974
r_dihedral_angle_3_deg14.104
r_dihedral_angle_4_deg11.967
r_dihedral_angle_1_deg6.253
r_angle_refined_deg1.269
r_mcangle_it1.269
r_nbtor_refined0.31
r_symmetry_vdw_refined0.232
r_nbd_refined0.207
r_symmetry_hbond_refined0.189
r_xyhbond_nbd_refined0.144
r_chiral_restr0.094
r_bond_refined_d0.013
r_mcbond_it0.013
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
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 Atoms5412
Nucleic Acid Atoms
Solvent Atoms500
Heterogen Atoms30

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing