2WA4

FACTOR INHIBITING HIF-1 ALPHA WITH N,3-dihydroxybenzamide


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1H2NPDB ENTRY 1H2N

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.51.5M AMMONIUM SULFATE, 100MM HEPES PH 7.5, 3% PEG400, 1MM FESO4, 28MB/ML PROTEIN, 10MM SUBSTRATE. CRYSTALS ARE DEEP RED.
Crystal Properties
Matthews coefficientSolvent content
3.6866

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 87.115α = 90
b = 87.115β = 90
c = 150.91γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHRH COATED MIRROR2004-11-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX10.1SRSPX10.1

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
12.4937.77990.1116.89.12092377
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)
12.492.6293.40.831.88.4

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1H2N2.575.3819768103999.930.21390.211240.26672RANDOM41.511
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]
0.680.68-1.35
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.651
r_dihedral_angle_4_deg18.521
r_dihedral_angle_3_deg18.135
r_dihedral_angle_1_deg7.626
r_scangle_it3.952
r_scbond_it2.579
r_angle_refined_deg1.822
r_mcangle_it1.72
r_mcbond_it1.061
r_angle_other_deg1.009
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.651
r_dihedral_angle_4_deg18.521
r_dihedral_angle_3_deg18.135
r_dihedral_angle_1_deg7.626
r_scangle_it3.952
r_scbond_it2.579
r_angle_refined_deg1.822
r_mcangle_it1.72
r_mcbond_it1.061
r_angle_other_deg1.009
r_symmetry_hbond_refined0.33
r_symmetry_vdw_other0.322
r_symmetry_vdw_refined0.262
r_nbd_refined0.247
r_nbd_other0.211
r_mcbond_other0.209
r_nbtor_refined0.199
r_xyhbond_nbd_refined0.181
r_chiral_restr0.099
r_nbtor_other0.095
r_xyhbond_nbd_other0.046
r_bond_refined_d0.021
r_gen_planes_refined0.007
r_bond_other_d0.003
r_gen_planes_other0.001
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2726
Nucleic Acid Atoms
Solvent Atoms54
Heterogen Atoms28

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling