2WNJ

CRYSTAL STRUCTURE OF APLYSIA ACHBP IN COMPLEX WITH DMXBA


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2BYNPDB ENTRY 2BYN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
113% PEG4000, 0.1 M HEPES PH 7.5, 15% ISOPROPANOL, 15% GLYCEROL
Crystal Properties
Matthews coefficientSolvent content
2.6353

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 87.222α = 90
b = 114.799β = 90
c = 131.284γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2006-12-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-1ESRFID23-1

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
11.84799.90.0616.84.312226923.6
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)
11.81.999.90.52.44.3

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 2BYN1.820116030606699.850.170420.168550.20605RANDOM36.746
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]
0.42-0.760.35
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.778
r_dihedral_angle_4_deg19.998
r_dihedral_angle_3_deg14.492
r_dihedral_angle_1_deg6.322
r_scangle_it3.366
r_scbond_it2.294
r_mcangle_it1.593
r_angle_refined_deg1.507
r_mcbond_it1.051
r_angle_other_deg0.903
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.778
r_dihedral_angle_4_deg19.998
r_dihedral_angle_3_deg14.492
r_dihedral_angle_1_deg6.322
r_scangle_it3.366
r_scbond_it2.294
r_mcangle_it1.593
r_angle_refined_deg1.507
r_mcbond_it1.051
r_angle_other_deg0.903
r_symmetry_vdw_other0.283
r_mcbond_other0.258
r_symmetry_hbond_refined0.239
r_nbd_other0.22
r_nbd_refined0.201
r_nbtor_refined0.184
r_xyhbond_nbd_refined0.183
r_symmetry_vdw_refined0.12
r_nbtor_other0.099
r_chiral_restr0.094
r_bond_refined_d0.015
r_gen_planes_refined0.007
r_gen_planes_other0.006
r_bond_other_d0.002
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_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 Atoms8486
Nucleic Acid Atoms
Solvent Atoms992
Heterogen Atoms179

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing