7AT4

Structure of EstD11 in complex with Naproxen

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7AT0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5	291	3.2M Sodium formate + 0.1M citrate pH 5

Crystal Properties
Matthews coefficient	Solvent content
2.14	42.52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 48.172	α = 90
b = 90.604	β = 90
c = 126.251	γ = 90

Symmetry
Space Group	I 2 2 2

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 PILATUS 6M		2020-05-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALBA BEAMLINE XALOC	0.979	ALBA	XALOC

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.7	45.3	100	0.109	0.031	0.999	18.9	13.2		30890

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.7	1.73	100		0.95	0.277	0.91	3.1	12.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	7AT0	1.7	45.048	30878	1548	99.948	0.158	0.156	0.1908	19.281

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]
-0.012			0.011		0.001

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.89
r_dihedral_angle_4_deg	23.204
r_dihedral_angle_3_deg	14.403
r_lrange_it	6.707
r_lrange_other	6.494
r_dihedral_angle_1_deg	5.901
r_scangle_it	4.86
r_scangle_other	4.858
r_scbond_other	3.248
r_scbond_it	3.247
r_mcangle_other	2.402
r_mcangle_it	2.399
r_angle_refined_deg	1.712
r_mcbond_other	1.678
r_mcbond_it	1.677
r_angle_other_deg	1.46
r_symmetry_nbd_refined	0.265
r_nbd_other	0.244
r_nbd_refined	0.223
r_symmetry_xyhbond_nbd_refined	0.217
r_xyhbond_nbd_refined	0.205
r_symmetry_nbd_other	0.186
r_nbtor_refined	0.168
r_chiral_restr	0.092
r_symmetry_nbtor_other	0.082
r_symmetry_xyhbond_nbd_other	0.066
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2243
Nucleic Acid Atoms
Solvent Atoms	302
Heterogen Atoms	86

Software

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