4JQC

Crystal Structure of E.coli Enoyl Reductase in Complex with NAD and AFN-1252


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QSG 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.62770.1M Sodium acetate pH 4.6, 10%-15% (w/v) PEG 4000, 200mM Ammonium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.4850.37

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.77α = 90
b = 79.77β = 90
c = 324.528γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV++MirrorsMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU3001.5418

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
12.65091.60.05330.44.51830611
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)
12.62.69850.0614.43.21642

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 REPLACEMENTTHROUGHOUT1QSG2.8501398873191.710.230340.228120.27308RANDOM32.121
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]
-0.27-0.13-0.270.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.407
r_dihedral_angle_3_deg16.78
r_dihedral_angle_4_deg13.372
r_dihedral_angle_1_deg5.647
r_angle_refined_deg1.323
r_angle_other_deg0.755
r_scangle_it0.558
r_mcangle_it0.434
r_scbond_it0.327
r_mcbond_it0.238
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.407
r_dihedral_angle_3_deg16.78
r_dihedral_angle_4_deg13.372
r_dihedral_angle_1_deg5.647
r_angle_refined_deg1.323
r_angle_other_deg0.755
r_scangle_it0.558
r_mcangle_it0.434
r_scbond_it0.327
r_mcbond_it0.238
r_nbd_refined0.193
r_nbd_other0.171
r_symmetry_vdw_other0.127
r_xyhbond_nbd_refined0.116
r_symmetry_vdw_refined0.11
r_nbtor_other0.081
r_chiral_restr0.062
r_symmetry_hbond_refined0.045
r_mcbond_other0.022
r_bond_refined_d0.006
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3750
Nucleic Acid Atoms
Solvent Atoms29
Heterogen Atoms144

Software

Software
Software NamePurpose
CrystalCleardata collection
MOLREPphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling