9QA4 | pdb_00009qa4

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

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5A2R

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		289	1.2 M sodium citrate, 0.1 M HEPES pH 7.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 172.947	α = 90
b = 172.947	β = 90
c = 103.007	γ = 120

Symmetry
Space Group	H 3

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS EIGER2 XE 16M		2023-09-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.95	Diamond	I04

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.85	86.473	100	0.026	0.999	15.6	10.3		98093

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.88			0.32	0.886	2.2

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (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 DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.85	86.473	98090	5129	99.999	0.156	0.1543	0.1637	0.185	0.1898	31.852

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]
-1.592	-0.796		-1.592		5.163

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	14.971
r_dihedral_angle_3_deg	13.881
r_dihedral_angle_2_deg	9.091
r_lrange_it	7.96
r_lrange_other	7.86
r_scangle_it	6.826
r_scangle_other	6.826
r_dihedral_angle_1_deg	5.916
r_scbond_it	4.656
r_scbond_other	4.628
r_mcangle_it	3.321
r_mcangle_other	3.32
r_mcbond_other	2.697
r_mcbond_it	2.696
r_angle_refined_deg	1.909
r_angle_other_deg	0.676
r_nbd_other	0.305
r_symmetry_nbd_refined	0.271
r_chiral_restr	0.239
r_nbd_refined	0.232
r_nbtor_refined	0.195
r_symmetry_nbd_other	0.183
r_xyhbond_nbd_refined	0.175
r_symmetry_xyhbond_nbd_refined	0.15
r_symmetry_nbtor_other	0.082
r_symmetry_xyhbond_nbd_other	0.033
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4930
Nucleic Acid Atoms
Solvent Atoms	766
Heterogen Atoms	127

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing