8JHE

Hyper-thermostable ancestral L-amino acid oxidase 2 (HTAncLAAO2)

X-RAY DIFFRACTION

---

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	7	277	10% PEG3350, 0.2 M ammonium citrate tribasic, and 4%(v/v) 1,1,1,3,3,3-Hexafluoro-2-propanol

Crystal Properties
Matthews coefficient	Solvent content
2.66	53.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 180.896	α = 90
b = 180.896	β = 90
c = 81.41	γ = 90

Symmetry
Space Group	P 4

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 2M-F		2022-05-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PHOTON FACTORY BEAMLINE BL-5A	1.00	Photon Factory	BL-5A

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	2.2	48.5	100	0.999	21.5	20		133518

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	2.2	2.35			0.952	5.3

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	2.201	48.5	133518	6626	99.965	0.169	0.1674	0.2001	28.147

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]
-0.001			-0.001		0.001

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.349
r_dihedral_angle_3_deg	14.777
r_dihedral_angle_4_deg	14.109
r_dihedral_angle_1_deg	7.045
r_lrange_it	6.019
r_lrange_other	5.925
r_scangle_it	4.566
r_scangle_other	4.566
r_mcangle_it	3.58
r_mcangle_other	3.579
r_scbond_other	3.051
r_scbond_it	3.05
r_mcbond_it	2.532
r_mcbond_other	2.532
r_angle_refined_deg	1.518
r_angle_other_deg	1.328
r_nbd_refined	0.2
r_xyhbond_nbd_refined	0.183
r_symmetry_nbd_other	0.179
r_nbtor_refined	0.172
r_symmetry_xyhbond_nbd_refined	0.127
r_nbd_other	0.104
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.077
r_symmetry_nbd_refined	0.075
r_ncsr_local_group_3	0.065
r_ncsr_local_group_5	0.064
r_ncsr_local_group_6	0.061
r_ncsr_local_group_2	0.056
r_ncsr_local_group_4	0.056
r_ncsr_local_group_1	0.052
r_chiral_restr_other	0.046
r_symmetry_xyhbond_nbd_other	0.044
r_bond_refined_d	0.009
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	16068
Nucleic Acid Atoms
Solvent Atoms	1683
Heterogen Atoms	212

Software

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