8RQH | pdb_00008rqh

Crystal Structure of the flavoprotein monooxygenase TrlE from Streptomyces cyaneofuscatus Soc7

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	293.15	0.1 M BIS-TRIS propane pH 8.5 0.25 M Na2SO4 15% w/v PEG3350

Crystal Properties
Matthews coefficient	Solvent content
2.96	58.43

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 112.9	α = 90
b = 112.9	β = 90
c = 148.57	γ = 120

Symmetry
Space Group	P 31 2 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		2022-11-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06SA	1.00003	SLS	X06SA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.5	50	99.93	0.999	14.02	20.6		38458

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.5	2.589			0.554

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	2.5	49.572	38452	1923	99.964	0.194	0.1912	0.2	0.2385	0.24	64.575

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]
0.036	0.018		0.036		-0.118

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	16.321
r_dihedral_angle_6_deg	15.3
r_lrange_it	10.855
r_lrange_other	10.853
r_dihedral_angle_2_deg	10.012
r_scangle_it	8.994
r_scangle_other	8.909
r_mcangle_it	8.15
r_mcangle_other	8.149
r_dihedral_angle_1_deg	6.929
r_scbond_it	6.273
r_scbond_other	6.211
r_mcbond_it	5.773
r_mcbond_other	5.756
r_angle_refined_deg	1.365
r_dihedral_angle_other_2_deg	0.667
r_angle_other_deg	0.451
r_nbd_refined	0.202
r_symmetry_nbd_other	0.193
r_nbd_other	0.182
r_nbtor_refined	0.176
r_symmetry_xyhbond_nbd_refined	0.167
r_xyhbond_nbd_refined	0.143
r_symmetry_nbd_refined	0.139
r_symmetry_nbtor_other	0.079
r_ncsr_local_group_1	0.079
r_chiral_restr	0.06
r_bond_refined_d	0.006
r_gen_planes_refined	0.006
r_symmetry_xyhbond_nbd_other	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5761
Nucleic Acid Atoms
Solvent Atoms	158
Heterogen Atoms	123

Software

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