X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1V41 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8293Hanging drops were prepared mixing 1 microL of protein solution and 1 microL of reservoir solution containing 19% ammonium sulfate and 0.5 M sodium citrate pH 5.6. , VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
4.5973.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 138.748α = 90
b = 138.748β = 90
c = 159.366γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2008-02-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONLNLS BEAMLINE D03B-MX11.4310LNLSD03B-MX1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
12.7547.9599.10.0810.081113.9147932265
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.7599.10.0810.0813.913.915340

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1V412.7543.69221456676598.660.21230.21230.209330.2693RANDOM43.404
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]
0.010.010.01-0.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.43
r_dihedral_angle_4_deg26.683
r_dihedral_angle_3_deg25.884
r_dihedral_angle_1_deg12.423
r_scangle_it5.604
r_scbond_it3.767
r_angle_refined_deg3.57
r_mcangle_it2.837
r_mcbond_it1.751
r_nbtor_refined0.368
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.43
r_dihedral_angle_4_deg26.683
r_dihedral_angle_3_deg25.884
r_dihedral_angle_1_deg12.423
r_scangle_it5.604
r_scbond_it3.767
r_angle_refined_deg3.57
r_mcangle_it2.837
r_mcbond_it1.751
r_nbtor_refined0.368
r_nbd_refined0.322
r_symmetry_vdw_refined0.262
r_chiral_restr0.226
r_xyhbond_nbd_refined0.226
r_symmetry_hbond_refined0.21
r_bond_refined_d0.04
r_gen_planes_refined0.013
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2251
Nucleic Acid Atoms
Solvent Atoms24
Heterogen Atoms26

Software

Software
Software NamePurpose
HKL-2000data collection
AMoREphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling