9QAM | pdb_00009qam

Human angiotensin-1 converting enzyme C-domain in complex with ciprofloxacin

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6F9T

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4	289	0.1 M MIB pH 4.0, 5% glycerol, 15% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.64	53.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.087	α = 90
b = 85.417	β = 90
c = 135.662	γ = 90

Symmetry
Space Group	P 21 21 21

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 EIGER X 16M		2022-09-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.953731	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	135.66	100	0.067	0.995	6.7	13.4		60479

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	1.89			0.712	0.63

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	72.387	60396	3064	99.987	0.2	0.1986	0.2099	0.2268	0.2387	35.104

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]
2.726			-2.218		-0.508

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.193
r_dihedral_angle_3_deg	13.636
r_dihedral_angle_2_deg	8.233
r_dihedral_angle_1_deg	6.477
r_lrange_it	5.912
r_lrange_other	5.834
r_scangle_it	4.006
r_scangle_other	4.005
r_mcangle_other	2.66
r_mcangle_it	2.659
r_scbond_it	2.562
r_scbond_other	2.562
r_angle_refined_deg	1.786
r_mcbond_it	1.773
r_mcbond_other	1.769
r_angle_other_deg	0.609
r_nbd_refined	0.232
r_symmetry_nbd_refined	0.19
r_nbtor_refined	0.189
r_nbd_other	0.188
r_symmetry_nbd_other	0.186
r_xyhbond_nbd_refined	0.179
r_symmetry_xyhbond_nbd_refined	0.179
r_chiral_restr	0.171
r_symmetry_nbtor_other	0.077
r_bond_refined_d	0.008
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4649
Nucleic Acid Atoms
Solvent Atoms	332
Heterogen Atoms	150

Software

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