9QA1 | pdb_00009qa1

Drosophila melanogaster angiotensin converting enzyme homologue, AnCE in complex with VW dipeptide


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5A2R 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2891.2 M sodium citrate, 0.1 M HEPES pH 7.5
Crystal Properties
Matthews coefficientSolvent content
4.2771.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 172.529α = 90
b = 172.529β = 90
c = 103.745γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 XE 16M2023-10-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I040.95DiamondI04

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rpim I (All)CC (Half)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
12.243.171000.070.9978.621.758412
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.260.8480.8241.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)Mean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE2.243.1758400264999.9140.1720.16990.17660.21150.21541.03
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]
-2.196-1.098-2.1967.124
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.77
r_dihedral_angle_3_deg14.666
r_dihedral_angle_2_deg8.956
r_lrange_other8.68
r_lrange_it8.676
r_scangle_it7.867
r_scangle_other7.866
r_dihedral_angle_1_deg6.116
r_scbond_it5.175
r_scbond_other5.174
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.77
r_dihedral_angle_3_deg14.666
r_dihedral_angle_2_deg8.956
r_lrange_other8.68
r_lrange_it8.676
r_scangle_it7.867
r_scangle_other7.866
r_dihedral_angle_1_deg6.116
r_scbond_it5.175
r_scbond_other5.174
r_mcangle_it4.31
r_mcangle_other4.31
r_mcbond_it3.043
r_mcbond_other3.042
r_angle_refined_deg1.729
r_angle_other_deg0.606
r_nbd_other0.249
r_nbd_refined0.222
r_nbtor_refined0.192
r_symmetry_nbd_other0.186
r_chiral_restr0.176
r_symmetry_xyhbond_nbd_refined0.163
r_xyhbond_nbd_refined0.152
r_symmetry_nbtor_other0.08
r_symmetry_nbd_refined0.061
r_symmetry_xyhbond_nbd_other0.026
r_bond_refined_d0.008
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4909
Nucleic Acid Atoms
Solvent Atoms243
Heterogen Atoms101

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing