6ZE4

FAD-dependent oxidoreductase from Chaetomium thermophilum in complex with fragment 4-oxo-N-[(1S)-1-(pyridin-3-yl)ethyl]-4-(thiophen-2-yl)butanamide

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6ZE2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	293.15	17 % (w/v) PEG MME 5000, 0.1 M sodium acetate, pH 5.5, 0.16 M magnesium formate, protein concentration 8 mg/ml

Crystal Properties
Matthews coefficient	Solvent content
2.36	48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 93.562	α = 90
b = 109.875	β = 90
c = 116.113	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 PILATUS 6M		2018-05-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.9184	BESSY	14.1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.6	49.38	93.5	0.088	0.097	0.039	0.998	8.7	5.5		147085		-3.7	16.8

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.6	1.63	98.5		1.009	1.108	0.441	0.659	1.6	5.7

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-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	6ZE2	1.6	49.38	146842	7299	93.091	0.172	0.1722	0.1697	0.2022	random selection	19.643

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]
1.458			-0.984		-0.474

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.092
r_dihedral_angle_4_deg	18.158
r_dihedral_angle_3_deg	11.87
r_dihedral_angle_1_deg	7.223
r_lrange_it	4.372
r_lrange_other	4.001
r_scangle_it	2.901
r_scangle_other	2.901
r_scbond_it	1.978
r_scbond_other	1.976
r_mcangle_other	1.785
r_mcangle_it	1.784
r_angle_refined_deg	1.653
r_angle_other_deg	1.377
r_mcbond_it	1.343
r_mcbond_other	1.343
r_nbd_refined	0.202
r_symmetry_xyhbond_nbd_refined	0.195
r_symmetry_nbd_other	0.184
r_nbd_other	0.178
r_nbtor_refined	0.166
r_symmetry_nbd_refined	0.16
r_xyhbond_nbd_refined	0.146
r_chiral_restr	0.089
r_symmetry_nbtor_other	0.08
r_symmetry_xyhbond_nbd_other	0.07
r_bond_refined_d	0.01
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	8917
Nucleic Acid Atoms
Solvent Atoms	1601
Heterogen Atoms	340

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing