2WNC

Crystal structure of Aplysia ACHBP in complex with tropisetron


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
122% PEG4000, 0.1 M TRIS-HCL PH 7.5, 0.2 M LI2SO4
Crystal Properties
Matthews coefficientSolvent content
3.261

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 212.584α = 90
b = 212.584β = 90
c = 212.584γ = 90
Symmetry
Space GroupI 2 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2006-11-08MSINGLE 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
12.2871000.0913.95.88056735.7
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)
12.22.321000.53.45.9

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 2BYN2.275.1678146242099.950.178370.177320.21171RANDOM37.5237
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.027
r_dihedral_angle_4_deg22.446
r_dihedral_angle_3_deg15.935
r_dihedral_angle_1_deg6.201
r_scangle_it2.778
r_scbond_it1.951
r_angle_refined_deg1.464
r_mcangle_it1.175
r_mcbond_it0.985
r_angle_other_deg0.869
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.027
r_dihedral_angle_4_deg22.446
r_dihedral_angle_3_deg15.935
r_dihedral_angle_1_deg6.201
r_scangle_it2.778
r_scbond_it1.951
r_angle_refined_deg1.464
r_mcangle_it1.175
r_mcbond_it0.985
r_angle_other_deg0.869
r_symmetry_vdw_other0.25
r_nbd_other0.205
r_nbd_refined0.187
r_symmetry_vdw_refined0.183
r_symmetry_hbond_refined0.18
r_nbtor_refined0.178
r_mcbond_other0.161
r_xyhbond_nbd_refined0.153
r_nbtor_other0.087
r_chiral_restr0.08
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
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 Atoms8491
Nucleic Acid Atoms
Solvent Atoms611
Heterogen Atoms105

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing