9U5N | pdb_00009u5n

Structure of Chloroflexus aggregans flavin based fluorescent protein (CagFbFP) Q89E variant (complex with FMN)

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		300	pH 6.5, 0.02M Sodium formate; 0.02M Ammonium acetate; 0.02M Sodium citrate tribasic dihydrate; 0.02M Potassium sodium tartrate tetrahydrate; 0.02M Sodium oxamate; 0.1M Imidazole; 0.1M MES monohydrate (acid); 20% v/v Ethylene glycol; 10% w/v PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
2.32	46.93

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.722	α = 90
b = 109.602	β = 90
c = 39.053	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 EIGER2 X CdTe 16M		2023-10-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)	0.6888	PETRA III, EMBL c/o DESY	P14 (MX2)

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	1.27	54.8	100	1	14.1	26		61767

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	1.27	1.29			0.432

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	6RHF	1.27	48.239	61638	3045	99.814	0.162	0.1603	0.1603	0.1893	0.1897	18.68

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]
0.05			-0.085		0.034

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.98
r_dihedral_angle_3_deg	11.228
r_dihedral_angle_1_deg	6.969
r_dihedral_angle_2_deg	5.269
r_rigid_bond_restr	3.971
r_lrange_it	2.708
r_lrange_other	2.708
r_scangle_it	2.235
r_scangle_other	2.234
r_scbond_it	1.714
r_scbond_other	1.713
r_mcangle_it	1.678
r_mcangle_other	1.678
r_mcbond_it	1.319
r_mcbond_other	1.319
r_angle_refined_deg	1.169
r_angle_other_deg	0.415
r_nbd_refined	0.225
r_symmetry_nbd_other	0.21
r_nbtor_refined	0.184
r_nbd_other	0.156
r_xyhbond_nbd_refined	0.153
r_symmetry_xyhbond_nbd_refined	0.133
r_symmetry_nbd_refined	0.108
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.059
r_gen_planes_refined	0.006
r_bond_refined_d	0.004
r_gen_planes_other	0.001
r_symmetry_xyhbond_nbd_other	0.001
r_bond_other_d

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1598
Nucleic Acid Atoms
Solvent Atoms	207
Heterogen Atoms	74

Software

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