X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1LP9PDB ENTRY 1LP9

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.51.0 M NACL 20% PEG 8000 MES, PH 6.5
Crystal Properties
Matthews coefficientSolvent content
2.4529.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.422α = 90
b = 83.893β = 92.21
c = 122.273γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2005-02-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-IDAPS22-ID

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
12.883094.80.0873.438683
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)
12.883690.421.32.3

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 1LP92.88122.1738683200794.80.2690.2680.293RANDOM46.64
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]
0.990.681.02-1.96
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.089
r_dihedral_angle_3_deg12.391
r_dihedral_angle_4_deg8.199
r_dihedral_angle_1_deg4.107
r_angle_refined_deg0.75
r_nbtor_refined0.288
r_nbd_refined0.137
r_scangle_it0.137
r_symmetry_vdw_refined0.104
r_mcangle_it0.104
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.089
r_dihedral_angle_3_deg12.391
r_dihedral_angle_4_deg8.199
r_dihedral_angle_1_deg4.107
r_angle_refined_deg0.75
r_nbtor_refined0.288
r_nbd_refined0.137
r_scangle_it0.137
r_symmetry_vdw_refined0.104
r_mcangle_it0.104
r_symmetry_hbond_refined0.091
r_xyhbond_nbd_refined0.08
r_scbond_it0.08
r_mcbond_it0.057
r_chiral_restr0.049
r_bond_refined_d0.005
r_gen_planes_refined0.002
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_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 Atoms13128
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing