3HLJ

Crystal structure of human carbonic anhydrase isozyme II with 3-methylthiobenzimidazo[1,2-c][1,2,3]thiadiazol-7-sulfonamide


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2NNSPDB ENTRY 2NNS

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7298Crystallization buffer was 0.1M sodium BICINE, pH9.0, 0.2M ammonium sulfate and 2M sodium malonate, pH7.0 made from 1M sodium BICINE and 3.4M sodium malonate, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.140.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.14α = 90
b = 40.927β = 104.23
c = 72.036γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm platemirrors2007-09-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE BW7B0.84230EMBL/DESY, HAMBURGBW7B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.43824.456970.0560.0567.0154.1421944219414
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.441.5289.30.4310.4311.745634

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 ENTRY 2NNS1.4423.814219342193424897.630.1780.1780.1750.206RANDOM16.481
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]
0.39-0.37-0.35-0.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.178
r_dihedral_angle_4_deg21.849
r_dihedral_angle_3_deg12.26
r_dihedral_angle_1_deg6.219
r_sphericity_free3.882
r_sphericity_bonded3.114
r_scangle_it2.796
r_scbond_it1.986
r_rigid_bond_restr1.412
r_mcangle_it1.372
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.178
r_dihedral_angle_4_deg21.849
r_dihedral_angle_3_deg12.26
r_dihedral_angle_1_deg6.219
r_sphericity_free3.882
r_sphericity_bonded3.114
r_scangle_it2.796
r_scbond_it1.986
r_rigid_bond_restr1.412
r_mcangle_it1.372
r_angle_refined_deg1.245
r_mcbond_it0.832
r_nbtor_refined0.305
r_symmetry_hbond_refined0.207
r_nbd_refined0.19
r_xyhbond_nbd_refined0.16
r_symmetry_vdw_refined0.16
r_chiral_restr0.087
r_metal_ion_refined0.068
r_bond_refined_d0.009
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2049
Nucleic Acid Atoms
Solvent Atoms219
Heterogen Atoms28

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PDB_EXTRACTdata extraction