6T81

Human Carbonic anhydrase II bound by 2-Naphthalenesulfonamide.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4HT0 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2910.1M sodium bicine (pH 9) and 2M sodium malonate (pH 7)
Crystal Properties
Matthews coefficientSolvent content
2.0539.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.032α = 90
b = 41.009β = 104.13
c = 71.684γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2016-12-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)0.976800PETRA III, EMBL c/o DESYP14 (MX2)

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)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
10.9840.7684.80.0420.0560.02228.26.6114851114851
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
10.981.0356.70.3170.3170.3860.1552.35.9

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 REPLACEMENTTHROUGHOUT4HT00.9839.641033361147984.620.14820.14560.1716RANDOM14.733
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]
0.72-0.01-0.57-0.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.286
r_sphericity_free22.454
r_dihedral_angle_4_deg21.884
r_sphericity_bonded13.238
r_rigid_bond_restr12.399
r_dihedral_angle_3_deg12.279
r_dihedral_angle_1_deg7.338
r_angle_refined_deg2.404
r_chiral_restr0.152
r_bond_refined_d0.018
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.286
r_sphericity_free22.454
r_dihedral_angle_4_deg21.884
r_sphericity_bonded13.238
r_rigid_bond_restr12.399
r_dihedral_angle_3_deg12.279
r_dihedral_angle_1_deg7.338
r_angle_refined_deg2.404
r_chiral_restr0.152
r_bond_refined_d0.018
r_gen_planes_refined0.016
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2035
Nucleic Acid Atoms
Solvent Atoms314
Heterogen Atoms44

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
MOLREPphasing
Cootmodel building