8C9S

Catechol O-methyltransferase from Streptomyces avermitilis in complex with SAH

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	0.2M Ammonium formate, 10% w/v Polyvinylpyrrolidone 20% w/v PEG 4000

Crystal Properties
Matthews coefficient	Solvent content
2.07	40.52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 46.398	α = 90
b = 41.596	β = 96.564
c = 104.207	γ = 90

Symmetry
Space Group	P 1 21 1

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		2022-10-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, DESY BEAMLINE P11	1.0332	PETRA III, DESY	P11

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.8	46.09	99.2	0.158	0.998	9.2	7.6		36681

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.84			1.406	0.603

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.8	46.09	36669	1855	99.036	0.164	0.162	0.2107	22.338

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]
-1.127		-0.492	0.571		0.652

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.761
r_dihedral_angle_4_deg	17.719
r_dihedral_angle_3_deg	13.534
r_dihedral_angle_1_deg	5.829
r_lrange_it	5.098
r_lrange_other	5.06
r_scangle_it	4.268
r_scangle_other	4.267
r_scbond_it	2.773
r_scbond_other	2.773
r_mcangle_it	2.154
r_mcangle_other	2.153
r_mcbond_it	1.561
r_mcbond_other	1.561
r_angle_refined_deg	1.528
r_angle_other_deg	1.375
r_nbd_other	0.247
r_symmetry_nbd_refined	0.209
r_nbd_refined	0.201
r_symmetry_nbd_other	0.188
r_xyhbond_nbd_refined	0.182
r_symmetry_xyhbond_nbd_other	0.165
r_nbtor_refined	0.16
r_symmetry_xyhbond_nbd_refined	0.114
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.073
r_bond_refined_d	0.01
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3388
Nucleic Acid Atoms
Solvent Atoms	173
Heterogen Atoms	66

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
Coot	model building
MOLREP	phasing