X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JPNPDB ENTRY 1JPN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
14.730% MPD, 0.1M NAACETATE, PH 4.7, 0.1M MNCL2, 2MM MGCL2
Crystal Properties
Matthews coefficientSolvent content
2.345.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 109.473α = 90
b = 54.496β = 97.72
c = 98.799γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2000-01-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-1SSRLBL9-1

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
11.118.594.60.0430.62.6199458-3
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)
11.11.11800.262.61.8

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 1JPN1.1429.84183740967691.10.150.1490.172RANDOM21.12
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.083
r_dihedral_angle_4_deg16.365
r_dihedral_angle_3_deg12.99
r_scangle_it10.239
r_scbond_it7.838
r_dihedral_angle_1_deg5.554
r_mcangle_it4.748
r_mcbond_it4.379
r_angle_refined_deg1.621
r_angle_other_deg0.884
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.083
r_dihedral_angle_4_deg16.365
r_dihedral_angle_3_deg12.99
r_scangle_it10.239
r_scbond_it7.838
r_dihedral_angle_1_deg5.554
r_mcangle_it4.748
r_mcbond_it4.379
r_angle_refined_deg1.621
r_angle_other_deg0.884
r_symmetry_vdw_other0.34
r_symmetry_vdw_refined0.25
r_nbd_refined0.233
r_xyhbond_nbd_refined0.201
r_nbd_other0.184
r_nbtor_refined0.17
r_symmetry_hbond_refined0.168
r_chiral_restr0.101
r_nbtor_other0.08
r_bond_refined_d0.015
r_gen_planes_refined0.008
r_gen_planes_other0.003
r_bond_other_d0.002
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_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 Atoms4563
Nucleic Acid Atoms
Solvent Atoms559
Heterogen Atoms30

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling