3H5G

Switching the Chirality of the Metal Environment Alters the Coordination Mode in Designed Peptides.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2JGO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION629330% PEG 200, 5% PEG 3000, pH 6.0, VAPOR DIFFUSION, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.1542.82

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.723α = 90
b = 29.237β = 119.6
c = 44.385γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93CCDMAR CCD2008-03-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.97872APS21-ID-F

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
11.715096.50.0654.0267.186469096
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)
11.711.7491.10.1874.9387

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2jgo1.7114.688646908544096.490.1830.1810.224RANDOM29.304
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]
0.130.12-0.060.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.102
r_dihedral_angle_3_deg14.025
r_dihedral_angle_1_deg4.058
r_scangle_it2.996
r_scbond_it2.249
r_angle_refined_deg1.143
r_mcangle_it1.09
r_angle_other_deg0.907
r_mcbond_it0.883
r_symmetry_hbond_refined0.293
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.102
r_dihedral_angle_3_deg14.025
r_dihedral_angle_1_deg4.058
r_scangle_it2.996
r_scbond_it2.249
r_angle_refined_deg1.143
r_mcangle_it1.09
r_angle_other_deg0.907
r_mcbond_it0.883
r_symmetry_hbond_refined0.293
r_metal_ion_refined0.263
r_nbd_refined0.245
r_mcbond_other0.214
r_symmetry_vdw_refined0.209
r_nbtor_refined0.177
r_nbd_other0.169
r_symmetry_vdw_other0.153
r_xyhbond_nbd_refined0.15
r_symmetry_metal_ion_refined0.112
r_nbtor_other0.091
r_chiral_restr0.063
r_bond_refined_d0.011
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms708
Nucleic Acid Atoms
Solvent Atoms57
Heterogen Atoms11

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction