7BH0

Mutant L39Y of recombinant beta-lactoglobulin in complex with endogenous ligand

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	7.1	293	2.2 M ammonium sulfate in 0.5 M Tris-HCl pH 7.1

Crystal Properties
Matthews coefficient	Solvent content
2.46	50.04

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.27	α = 90
b = 53.27	β = 90
c = 109.89	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		2015-03-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SEALED TUBE	Agilent SuperNova	1.54

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim 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	13.74	99.4	0.058	0.07	0.038	0.998	7.7	2.7		11001

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.1	2.16	98.5		0.223	0.3	0.199	0.884	2	2.1

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-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1BSY	2.1	13.661	10981	1066	99.133	0.208	0.208	0.2008	0.2754	RANDOM	36.239

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]
0.075	0.037		0.075		-0.243

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.049
r_dihedral_angle_3_deg	16.547
r_lrange_other	11.821
r_lrange_it	11.807
r_scangle_it	11.433
r_scangle_other	11.427
r_scbond_it	10.248
r_scbond_other	10.24
r_mcangle_it	8.631
r_mcangle_other	8.625
r_dihedral_angle_4_deg	7.997
r_mcbond_it	7.607
r_mcbond_other	7.603
r_dihedral_angle_1_deg	7.219
r_angle_refined_deg	1.686
r_angle_other_deg	1.239
r_nbd_other	0.294
r_nbd_refined	0.21
r_symmetry_xyhbond_nbd_refined	0.198
r_symmetry_nbd_other	0.191
r_xyhbond_nbd_refined	0.188
r_symmetry_nbd_refined	0.174
r_nbtor_refined	0.157
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.07
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_gen_planes_other	0.005
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1161
Nucleic Acid Atoms
Solvent Atoms	86
Heterogen Atoms	15

Software

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