5CWE

Structure of CYP107L2 from Streptomyces avermitilis with lauric acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2CD8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5287Lithium sulfate monohydrate, Tris-HCL, PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.7955.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.08α = 90
b = 118.371β = 105.51
c = 66.039γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2702013-07-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPAL/PLS BEAMLINE 5C (4A)0.97952PAL/PLS5C (4A)

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.395099.425.5437158
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)
12.392.4495.80.4473.93.9

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 REPLACEMENTTHROUGHOUT2CD82.3947.4335267186298.80.229610.225860.30085RANDOM44.737
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]
-0.030.020.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.199
r_dihedral_angle_3_deg18.08
r_dihedral_angle_4_deg17.934
r_dihedral_angle_1_deg7.553
r_long_range_B_refined7.256
r_long_range_B_other7.255
r_mcangle_it4.703
r_mcangle_other4.703
r_scangle_other4.619
r_mcbond_it3.037
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.199
r_dihedral_angle_3_deg18.08
r_dihedral_angle_4_deg17.934
r_dihedral_angle_1_deg7.553
r_long_range_B_refined7.256
r_long_range_B_other7.255
r_mcangle_it4.703
r_mcangle_other4.703
r_scangle_other4.619
r_mcbond_it3.037
r_mcbond_other3.036
r_scbond_it2.967
r_scbond_other2.964
r_angle_refined_deg1.727
r_angle_other_deg1.071
r_chiral_restr0.102
r_bond_refined_d0.013
r_gen_planes_refined0.008
r_gen_planes_other0.003
r_bond_other_d0.002
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6072
Nucleic Acid Atoms
Solvent Atoms168
Heterogen Atoms130

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata processing
MOLREPmodel building
PHASERphasing
HKL-2000data processing
Cootmodel building