X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1P5RPDB ENTRY 1P5R

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5293PEG 4000, Mg chloride, Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.8256.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 151.116α = 90
b = 151.116β = 90
c = 99.593γ = 90
Symmetry
Space GroupI 4

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDMARRESEARCH2003-09-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X110.812EMBL/DESY, HAMBURGX11

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.1320.1798.20.09113.74.3610716107131.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.132.2481.90.4172.23.37477

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB ENTRY 1P5R2.1320.175794057940306898.240.1720.1720.1710.2019RANDOM30.873
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]
0.340.34-0.68
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.115
r_scangle_it2.467
r_scbond_it1.496
r_angle_refined_deg1.404
r_mcangle_it1.104
r_angle_other_deg0.817
r_mcbond_it0.586
r_symmetry_vdw_other0.229
r_nbd_other0.228
r_nbd_refined0.196
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.115
r_scangle_it2.467
r_scbond_it1.496
r_angle_refined_deg1.404
r_mcangle_it1.104
r_angle_other_deg0.817
r_mcbond_it0.586
r_symmetry_vdw_other0.229
r_nbd_other0.228
r_nbd_refined0.196
r_xyhbond_nbd_refined0.188
r_symmetry_hbond_refined0.136
r_symmetry_vdw_refined0.131
r_nbtor_other0.084
r_chiral_restr0.079
r_bond_refined_d0.01
r_gen_planes_refined0.005
r_gen_planes_other0.004
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6620
Nucleic Acid Atoms
Solvent Atoms470
Heterogen Atoms98

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling