X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1YALThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci
experimental modelPDB 1GECThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci
experimental modelPDB 1PPOThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci
experimental modelPDB 1MEGThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci
experimental modelPDB 1PCIThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP1029320 % (w/v) PEGl 6000, 0.1 M citrate, 15 % (v/v) ethanolamine, pH 10.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.2445

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.356α = 90
b = 90.454β = 92.636
c = 80.391γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDNonius Kappa CCD2003-09-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER

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
12.140.899.30.09517.2715.947249
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)
2.12.1897.197.10.2963.4953.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTThe initial model was calculated using the SWISS-MODEL server using ProModII for modelling and GROMOS96 for energy minimization (Schwede et al., 2000). Initial models pdb I.Ds.: 1yal, 1gec, 1ppo, 1meg and 1pci2.140.840977457695.510.1830.1770.238RANDOM14.046
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]
-0.66-0.271.05-0.42
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.388
r_dihedral_angle_4_deg18.847
r_dihedral_angle_3_deg12.555
r_dihedral_angle_1_deg6.222
r_mcangle_it1.819
r_scangle_it1.801
r_scbond_it1.3
r_mcbond_it1.235
r_angle_refined_deg1.092
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.388
r_dihedral_angle_4_deg18.847
r_dihedral_angle_3_deg12.555
r_dihedral_angle_1_deg6.222
r_mcangle_it1.819
r_scangle_it1.801
r_scbond_it1.3
r_mcbond_it1.235
r_angle_refined_deg1.092
r_nbtor_refined0.301
r_nbd_refined0.203
r_symmetry_vdw_refined0.152
r_xyhbond_nbd_refined0.129
r_symmetry_hbond_refined0.128
r_chiral_restr0.069
r_bond_refined_d0.012
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6472
Nucleic Acid Atoms
Solvent Atoms379
Heterogen Atoms100

Software

Software
Software NamePurpose
REFMACrefinement
CNSrefinement
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
CNSphasing