2QBT

Structural Studies Reveal The Inactivation of E. coli L-aspartate aminotransferase by (S)-4,5-amino-dihydro-2-thiophenecarboxylic acid (SADTA) via Two Mechanisms (at pH 8.0)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1AMQpdb entry 1AMQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1EVAPORATION829825 mM potassium phosphate, 43% saturated ammonium sulfate, 20 mM SADTA, pH 8.0, EVAPORATION, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.9558.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 154.149α = 90
b = 84.76β = 90
c = 78.951γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152005-02-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-BM-C0.9APS14-BM-C

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
11.7524.898.20.06512.54.748869
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)
11.751.8199.50.5892.34.65143

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)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 1AMQ1.7524.82.348869261298.180.150930.148830.19031RANDOM24.359
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]
-1.041.07-0.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.679
r_dihedral_angle_4_deg18.663
r_dihedral_angle_3_deg14.028
r_dihedral_angle_1_deg6.514
r_scangle_it3.834
r_scbond_it2.623
r_mcangle_it1.639
r_angle_refined_deg1.486
r_mcbond_it1.052
r_nbtor_refined0.308
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.679
r_dihedral_angle_4_deg18.663
r_dihedral_angle_3_deg14.028
r_dihedral_angle_1_deg6.514
r_scangle_it3.834
r_scbond_it2.623
r_mcangle_it1.639
r_angle_refined_deg1.486
r_mcbond_it1.052
r_nbtor_refined0.308
r_symmetry_vdw_refined0.229
r_nbd_refined0.224
r_chiral_restr0.194
r_xyhbond_nbd_refined0.169
r_symmetry_hbond_refined0.152
r_bond_refined_d0.012
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3077
Nucleic Acid Atoms
Solvent Atoms410
Heterogen Atoms103

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing