2B7Y | pdb_00002b7y

Fava Bean Lectin-Glucose Complex

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		Pea lectin. Einspahr et al. (1986) J.Biol.Chem. 261:16518-16527.

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICRODIALYSIS	6.5	277	1 M glucose, 0.01 M sodium phosphate, pH 6.5, MICRODIALYSIS, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.7	54.2

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 90	α = 90
b = 89.3	β = 90
c = 67.4	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	293	FILM	FILM			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	ELLIOTT GX-6

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	3	46.18	93			10599	10599			53.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Pea lectin. Einspahr et al. (1986) J.Biol.Chem. 261:16518-16527.	3	46.18	10599	10599	545	92.71	0.227	0.227	0.224	0.2	0.3	0.29	RANDOM	25.733

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]
1.4			-2.2		0.8

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.086
r_dihedral_angle_3_deg	21.966
r_dihedral_angle_4_deg	21.472
r_dihedral_angle_1_deg	8.865
r_scangle_it	3.057
r_angle_refined_deg	2.056
r_scbond_it	1.842
r_mcangle_it	1.692
r_mcbond_it	0.95
r_nbtor_refined	0.347
r_symmetry_hbond_refined	0.32
r_nbd_refined	0.303
r_symmetry_vdw_refined	0.291
r_xyhbond_nbd_refined	0.233
r_metal_ion_refined	0.188
r_chiral_restr	0.117
r_bond_refined_d	0.02
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3556
Nucleic Acid Atoms
Solvent Atoms	8
Heterogen Atoms	56

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
ROCKS	data scaling
CROWTHER	phasing