5AC2

human aldehyde dehydrogenase 1A1 with duocarmycin analog


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4X4LPDB ENTRY 4X4L

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.2531.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 109.123α = 90
b = 109.123β = 90
c = 83.175γ = 90
Symmetry
Space GroupP 4 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SASLSX06SA

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
11.85109.199.780.188217.782643648
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)
11.851.9198.082.71.226.5

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 4X4L1.8548.841466218299.760.201910.199270.25122RANDOM41.726
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]
-0.83-0.831.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.965
r_dihedral_angle_4_deg20.223
r_dihedral_angle_3_deg15.481
r_dihedral_angle_1_deg6.734
r_scbond_it3.096
r_mcangle_it3.08
r_mcbond_it2.445
r_mcbond_other2.445
r_angle_refined_deg1.9
r_angle_other_deg0.865
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.965
r_dihedral_angle_4_deg20.223
r_dihedral_angle_3_deg15.481
r_dihedral_angle_1_deg6.734
r_scbond_it3.096
r_mcangle_it3.08
r_mcbond_it2.445
r_mcbond_other2.445
r_angle_refined_deg1.9
r_angle_other_deg0.865
r_chiral_restr0.105
r_bond_refined_d0.017
r_gen_planes_refined0.009
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_it
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 Atoms3816
Nucleic Acid Atoms
Solvent Atoms167
Heterogen Atoms69

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
PHASERphasing