1R5O

crystal structure analysis of sup35 complexed with GMPPNP


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1R5B 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5277HEPES, Ethylene Glycol, PEG 8000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.0959.85

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 82.524α = 90
b = 82.524β = 90
c = 168.076γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2003-07-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE BW7A0.9724EMBL/DESY, HAMBURGBW7A

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
132098.30.140.145.21198511894
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)
33.1198.30.140.140.77.31134

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 REPLACEMENTTHROUGHOUT1R5B3.220941745297.70.268360.265970.31959RANDOM48.353
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]
1.331.33-2.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.647
r_scangle_it2.554
r_mcangle_it2.001
r_scbond_it1.411
r_angle_refined_deg1.377
r_mcbond_it1.08
r_angle_other_deg0.831
r_symmetry_vdw_other0.267
r_nbd_other0.246
r_nbd_refined0.233
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.647
r_scangle_it2.554
r_mcangle_it2.001
r_scbond_it1.411
r_angle_refined_deg1.377
r_mcbond_it1.08
r_angle_other_deg0.831
r_symmetry_vdw_other0.267
r_nbd_other0.246
r_nbd_refined0.233
r_symmetry_vdw_refined0.219
r_symmetry_hbond_refined0.187
r_xyhbond_nbd_refined0.184
r_nbtor_other0.085
r_chiral_restr0.073
r_bond_refined_d0.012
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3222
Nucleic Acid Atoms
Solvent Atoms56
Heterogen Atoms32

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
CNSphasing