7ZLF | pdb_00007zlf

Mutant L39Y-L58F of recombinant bovine beta-lactoglobulin in complex with endogenous fatty acid

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1BSY

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	293	2.4 M in 0.5 M Tris-HCl, pH 8.5

Crystal Properties
Matthews coefficient	Solvent content
2.48	50.49

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.245	α = 90
b = 53.245	β = 90
c = 111.21	γ = 120

Symmetry
Space Group	P 32 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	AGILENT ATLAS CCD		2018-10-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SEALED TUBE	Agilent SuperNova	1.54056

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	2.1	15.21	99.6	0.113	0.122	0.998	8.9	6.7		11150

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.1	2.16	99.7		1.046	1.181	0.631	1.5

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	1BSY	2.1	15.21	11128	1052	99.357	0.196	0.1912	0.2	0.2374	0.24	38.259

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]
0.397	0.198		0.397		-1.287

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.708
r_dihedral_angle_3_deg	17.725
r_dihedral_angle_4_deg	12.936
r_dihedral_angle_1_deg	6.98
r_lrange_it	6.147
r_lrange_other	6.125
r_scangle_it	4.041
r_scangle_other	4.023
r_mcangle_it	3.17
r_mcangle_other	3.169
r_scbond_it	2.477
r_scbond_other	2.454
r_mcbond_it	2.013
r_mcbond_other	2.003
r_angle_refined_deg	1.629
r_angle_other_deg	1.248
r_symmetry_nbd_refined	0.234
r_nbd_other	0.231
r_nbd_refined	0.2
r_symmetry_xyhbond_nbd_refined	0.193
r_symmetry_nbd_other	0.191
r_xyhbond_nbd_refined	0.181
r_nbtor_refined	0.161
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.072
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1216
Nucleic Acid Atoms
Solvent Atoms	61
Heterogen Atoms	28

Software

Software
Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
Aimless	data scaling
PHASER	phasing