8PKY | pdb_00008pky

Structure of Chloroflexus aggregans flavin based fluorescent protein (CagFbFP) Q148V variant

X-RAY DIFFRACTION

---

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 Magnesium chloride hexahydrate 0.1 M TRIS hydrochloride pH 8.5 30% w/v Polyethylene glycol 4,000

Crystal Properties
Matthews coefficient	Solvent content
2.32	46.98

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.799	α = 90
b = 109.386	β = 90
c = 39.018	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	1.000	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	1.4	109.39	98	1	18.3	14.1		45300

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	1.4	1.42			0.412

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	1.4	54.753	45237	2217	97.772	0.144	0.1422	0.15	0.1855	0.19	18.639

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]
0.044			0.531		-0.574

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	14.86
r_dihedral_angle_3_deg	10.49
r_dihedral_angle_2_deg	7.374
r_dihedral_angle_1_deg	6.386
r_rigid_bond_restr	5.069
r_scangle_it	4.525
r_scangle_other	4.523
r_lrange_it	4.332
r_lrange_other	4.226
r_scbond_it	3.725
r_scbond_other	3.65
r_mcangle_it	2.597
r_mcangle_other	2.597
r_mcbond_it	2.489
r_mcbond_other	2.489
r_angle_refined_deg	0.903
r_symmetry_xyhbond_nbd_refined	0.359
r_angle_other_deg	0.337
r_xyhbond_nbd_refined	0.243
r_nbd_refined	0.239
r_symmetry_nbd_refined	0.22
r_nbd_other	0.206
r_symmetry_nbd_other	0.205
r_nbtor_refined	0.18
r_symmetry_nbtor_other	0.084
r_chiral_restr	0.045
r_gen_planes_refined	0.004
r_bond_refined_d	0.003
r_bond_other_d	0.002
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1593
Nucleic Acid Atoms
Solvent Atoms	281
Heterogen Atoms	62

Software

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