3PLK

Bovine trypsin variant X(tripleIle227) in complex with small molecule inhibitor


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1V2KPDB ENTRY 1V2K

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP729320% PEG 8000, 0.1M imidazole, 0.1M ammonium sulphate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.0138.72

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.601α = 90
b = 54.601β = 90
c = 109.041γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCDmirrorsMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.91841BESSY14.1

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
11.535098.60.0453411.9288392883911.4

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1V2K1.5347.32883928839147298.570.130960.130960.129390.15717RANDOM7.672
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]
0.110.050.11-0.16
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.927
r_dihedral_angle_4_deg15.803
r_dihedral_angle_3_deg11.153
r_dihedral_angle_1_deg6.392
r_scangle_it2.983
r_scbond_it1.977
r_angle_refined_deg1.459
r_mcangle_it1.212
r_angle_other_deg0.876
r_mcbond_it0.689
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.927
r_dihedral_angle_4_deg15.803
r_dihedral_angle_3_deg11.153
r_dihedral_angle_1_deg6.392
r_scangle_it2.983
r_scbond_it1.977
r_angle_refined_deg1.459
r_mcangle_it1.212
r_angle_other_deg0.876
r_mcbond_it0.689
r_mcbond_other0.191
r_chiral_restr0.091
r_bond_refined_d0.011
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1633
Nucleic Acid Atoms
Solvent Atoms350
Heterogen Atoms42

Software

Software
Software NamePurpose
MxCuBEdata collection
AMoREphasing
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling