4GJE

Crystal structure of the refolded amino-terminal domain of human cardiac troponin C in complex with cadmium


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.5298cadmium sulphate 0.05M, sodium acetate 1.0M, 0.1M Hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.0540.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.627α = 90
b = 49.627β = 90
c = 116.313γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2012-06-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08B1-10.97921CLSI08B1-1

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
11.65099.90.0581820.411929119122-3
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)
11.61.661000.38220.61155

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.642.98112341179556199.350.12190.1220.12060.1497RANDOM28.3211
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]
0.080.040.08-0.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg44.608
r_dihedral_angle_4_deg27.846
r_dihedral_angle_3_deg15.232
r_scangle_it8.967
r_dihedral_angle_1_deg6.612
r_scbond_it6.293
r_mcangle_it4.468
r_rigid_bond_restr3.425
r_mcbond_it3.009
r_angle_refined_deg1.735
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg44.608
r_dihedral_angle_4_deg27.846
r_dihedral_angle_3_deg15.232
r_scangle_it8.967
r_dihedral_angle_1_deg6.612
r_scbond_it6.293
r_mcangle_it4.468
r_rigid_bond_restr3.425
r_mcbond_it3.009
r_angle_refined_deg1.735
r_chiral_restr0.125
r_bond_refined_d0.018
r_gen_planes_refined0.012
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms670
Nucleic Acid Atoms
Solvent Atoms67
Heterogen Atoms21

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MxDCdata collection
HKL-2000data reduction
MOLREPphasing