2VCS | pdb_00002vcs

Structure of isoniazid (INH) bound to cytosolic soybean ascorbate peroxidase mutant H42A


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OAFPDB ENTRY 1OAF

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.32.5M LISO4, PH 8.3
Crystal Properties
Matthews coefficientSolvent content
1.9335.82

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.735α = 90
b = 81.735β = 90
c = 74.937γ = 90
Symmetry
Space GroupP 42 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU IMAGE PLATEXENOCS MULTI-LAYER2007-08-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH2R

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
11.6827.62840.0331.24.1824816
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)
11.681.7726.80.212.51.3

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-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1OAF1.6827.6223523126084.60.1680.1660.160.210.21RANDOM18.4
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]
-0.06-0.060.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.374
r_dihedral_angle_4_deg20.063
r_dihedral_angle_3_deg12.844
r_dihedral_angle_1_deg5.242
r_scangle_it3.58
r_scbond_it2.512
r_mcangle_it1.546
r_angle_refined_deg1.179
r_mcbond_it1.025
r_symmetry_hbond_refined0.556
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1900
Nucleic Acid Atoms
Solvent Atoms299
Heterogen Atoms68

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
REFMACphasing