8PM1 | pdb_00008pm1

Structure of Chloroflexus aggregans flavin based fluorescent protein (CagFbFP) variant I52V A85Q

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2 M Calcium acetate hydrate 0.1 M Sodium cacodylate trihydrate pH 6.5 18% w/v Polyethylene glycol 8,000

Crystal Properties
Matthews coefficient	Solvent content
2.35	47.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.817	α = 90
b = 110.431	β = 90
c = 39.314	γ = 90

Symmetry
Space Group	P 21 21 2

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		2023-05-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	1.0000	ELETTRA	11.2C

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	1.5	110.43	98.9	0.998	8.5	14		37959

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	1.5	1.53			0.447	0.7

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	1.5	55.215	37905	1866	98.652	0.199	0.1972	0.2	0.2285	0.23	15.989

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]
0.474			0.038		-0.512

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	17.455
r_dihedral_angle_3_deg	13.704
r_dihedral_angle_2_deg	7.546
r_dihedral_angle_1_deg	7.094
r_lrange_it	5.637
r_lrange_other	5.231
r_scangle_it	3.416
r_scangle_other	3.415
r_scbond_it	2.382
r_scbond_other	2.373
r_mcangle_it	2.234
r_mcangle_other	2.234
r_angle_refined_deg	1.632
r_mcbond_it	1.512
r_mcbond_other	1.51
r_angle_other_deg	0.748
r_symmetry_nbd_refined	0.236
r_nbd_refined	0.226
r_nbd_other	0.21
r_symmetry_nbd_other	0.188
r_nbtor_refined	0.176
r_xyhbond_nbd_refined	0.172
r_symmetry_xyhbond_nbd_refined	0.127
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.076
r_bond_other_d	0.021
r_bond_refined_d	0.009
r_gen_planes_refined	0.009
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1639
Nucleic Acid Atoms
Solvent Atoms	226
Heterogen Atoms	62

Software

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