3EXX

Structure of the T6 human insulin derivative with nickel at 1.35 A resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.42911 mM sodium citrate, 10% acetone, 15 mM nickel(II) acetate tetrahydrate, pH 6.4, vapor diffusion, hanging drop, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
1.8533.51

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.411α = 90
b = 81.411β = 90
c = 33.752γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2002-10-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONELETTRA BEAMLINE 5.2R1.00ELETTRA5.2R

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.3516.4199.72935218240
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.351.385100

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONTHROUGHOUT1.3516.41182401824093599.70.1260.1260.1240.171RANDOM15.198
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]
-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.246
r_dihedral_angle_1_deg21.571
r_dihedral_angle_3_deg13.042
r_sphericity_free10.719
r_dihedral_angle_4_deg9.224
r_sphericity_bonded7.482
r_scangle_it6.722
r_scbond_it5.041
r_mcangle_it3.891
r_rigid_bond_restr2.93
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.246
r_dihedral_angle_1_deg21.571
r_dihedral_angle_3_deg13.042
r_sphericity_free10.719
r_dihedral_angle_4_deg9.224
r_sphericity_bonded7.482
r_scangle_it6.722
r_scbond_it5.041
r_mcangle_it3.891
r_rigid_bond_restr2.93
r_mcbond_it2.778
r_angle_refined_deg2.15
r_chiral_restr0.17
r_bond_refined_d0.028
r_gen_planes_refined0.013
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms810
Nucleic Acid Atoms
Solvent Atoms151
Heterogen Atoms4

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection