7PGZ | pdb_00007pgz

Structure of dark-adapted AsLOV2 Q513L

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2V0U

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.6	298	0.1 M sodium acetate pH 4.6-5.0, 6-8% (w/v) PEG 4000, 30% (v/v) glycerol

Crystal Properties
Matthews coefficient	Solvent content
1.92	35.83

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 35.61	α = 90
b = 54.55	β = 90
c = 66.46	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 PILATUS3 2M		2019-03-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.2	0.7999	BESSY	14.2

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	0.9	42.17	99	1	13.8	7.2		95419

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	0.9	0.95	97.6		0.371	0.99	6.9

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2V0U	0.9	42.165	95415	4771	98.934	0.116	0.115	0.12	0.1393	0.14	10.258

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]
-0.21			0.337		-0.127

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.134
r_dihedral_angle_4_deg	16.693
r_dihedral_angle_3_deg	14.158
r_dihedral_angle_1_deg	7.119
r_lrange_it	2.41
r_rigid_bond_restr	2.278
r_lrange_other	2.243
r_angle_refined_deg	1.987
r_scangle_it	1.947
r_scangle_other	1.946
r_scbond_other	1.719
r_scbond_it	1.718
r_angle_other_deg	1.479
r_mcangle_it	1.071
r_mcangle_other	1.07
r_mcbond_it	0.863
r_mcbond_other	0.856
r_nbd_refined	0.34
r_symmetry_nbd_refined	0.31
r_nbd_other	0.25
r_symmetry_nbd_other	0.213
r_xyhbond_nbd_refined	0.208
r_symmetry_xyhbond_nbd_refined	0.196
r_nbtor_refined	0.189
r_chiral_restr	0.102
r_symmetry_nbtor_other	0.088
r_symmetry_xyhbond_nbd_other	0.024
r_xyhbond_nbd_other	0.015
r_bond_refined_d	0.012
r_gen_planes_refined	0.01
r_gen_planes_other	0.003
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1185
Nucleic Acid Atoms
Solvent Atoms	215
Heterogen Atoms	119

Software

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