2HW1

Crystal structure of human ketohexokinase complexed to different sugar molecules


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HQQPDB ENTRY 2HQQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.72910.7M ammonium sulphate, 0.5M lithium sulphate, 0.1M sodium citrate, pH 5.7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
3.6966.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 61.264α = 90
b = 107.823β = 90
c = 146.679γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4mirrors2003-10-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX14.10.977SRSPX14.1

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
12.187.7197.20.0660.0668.43.8278852788529.8
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)
12.12.2191.20.340.343.43.53744

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB ENTRY 2HQQ2.187.712788526466141696.780.194410.192630.22777RANDOM29.841
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]
0.221.35-1.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.728
r_dihedral_angle_4_deg14.652
r_dihedral_angle_3_deg13.967
r_dihedral_angle_1_deg5.365
r_scangle_it2.132
r_mcangle_it2.092
r_scbond_it1.326
r_angle_refined_deg1.292
r_mcbond_it1.258
r_nbtor_refined0.319
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.728
r_dihedral_angle_4_deg14.652
r_dihedral_angle_3_deg13.967
r_dihedral_angle_1_deg5.365
r_scangle_it2.132
r_mcangle_it2.092
r_scbond_it1.326
r_angle_refined_deg1.292
r_mcbond_it1.258
r_nbtor_refined0.319
r_symmetry_hbond_refined0.287
r_symmetry_vdw_refined0.253
r_xyhbond_nbd_refined0.247
r_nbd_refined0.224
r_chiral_restr0.077
r_bond_refined_d0.012
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2277
Nucleic Acid Atoms
Solvent Atoms247
Heterogen Atoms54

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing