3ZU1

Structure of LysB29(Nepsilon omega-carboxyheptadecanoyl) des(B30) Human Insulin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1EV3PDB ENTRY 1EV3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.5100MM HEPES, 300MM NA-CITRATE, 24% 2-PROPANOL PH 7.5
Crystal Properties
Matthews coefficientSolvent content
2.1440

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.06α = 90
b = 79.06β = 90
c = 41.02γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2008-12-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-3MAX III911-3

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
11.64090.50.0411.32.0722850
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)
11.61.6584.80.451.71.65

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 1EV31.621.8811270124999.20.170.1650.214RANDOM33.54
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]
-1.4-0.7-1.42.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.194
r_dihedral_angle_3_deg13.446
r_dihedral_angle_1_deg5.977
r_scangle_it4.603
r_dihedral_angle_4_deg4.425
r_scbond_it3.162
r_mcangle_it2.036
r_angle_refined_deg1.947
r_mcbond_it1.23
r_angle_other_deg1.017
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.194
r_dihedral_angle_3_deg13.446
r_dihedral_angle_1_deg5.977
r_scangle_it4.603
r_dihedral_angle_4_deg4.425
r_scbond_it3.162
r_mcangle_it2.036
r_angle_refined_deg1.947
r_mcbond_it1.23
r_angle_other_deg1.017
r_mcbond_other0.39
r_chiral_restr0.133
r_bond_refined_d0.023
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
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 Atoms748
Nucleic Acid Atoms
Solvent Atoms76
Heterogen Atoms20

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing