1UHB

Crystal structure of porcine alpha trypsin bound with auto catalyticaly produced native peptide at 2.15 A resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QQUpdb code 1qqu

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.72931.5M ammonium sulphate, pH 6.70, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
1.8934.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 46.945α = 90
b = 53.921β = 90
c = 77.245γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293IMAGE PLATEMARRESEARCHMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
12.1576.70.143.5111879847
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)
2.152.230.143.59847

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 code 1qqu2.1519.3111187942546788.440.1930.1930.1930.22787RANDOM17.896
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]
-1.610.371.24
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.016
r_scangle_it7.358
r_scbond_it5.242
r_dihedral_angle_1_deg4.676
r_mcangle_it3.316
r_angle_refined_deg2.597
r_mcbond_it2.137
r_angle_other_deg1.474
r_xyhbond_nbd_refined0.747
r_symmetry_vdw_other0.549
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg19.016
r_scangle_it7.358
r_scbond_it5.242
r_dihedral_angle_1_deg4.676
r_mcangle_it3.316
r_angle_refined_deg2.597
r_mcbond_it2.137
r_angle_other_deg1.474
r_xyhbond_nbd_refined0.747
r_symmetry_vdw_other0.549
r_symmetry_vdw_refined0.496
r_nbd_refined0.391
r_nbd_other0.256
r_symmetry_hbond_refined0.234
r_chiral_restr0.181
r_bond_refined_d0.04
r_nbtor_other0.022
r_gen_planes_refined0.014
r_xyhbond_nbd_other0.01
r_gen_planes_other0.008
r_bond_other_d0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1704
Nucleic Acid Atoms
Solvent Atoms147
Heterogen Atoms5

Software

Software
Software NamePurpose
MAR345data collection
DENZOdata reduction
CNSrefinement
REFMACrefinement
SCALEPACKdata scaling
CNSphasing