9FMY | pdb_00009fmy

X-ray structure of the adduct of bis(maltolato)oxidovanadium(IV) with lysozyme upon the breakage of the maltolate ring

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	193L

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4	293	1.1 M sodium chloride, 0.1 M sodium acetate pH 4.0

Crystal Properties
Matthews coefficient	Solvent content
2	38.44

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 78.11	α = 90
b = 78.11	β = 90
c = 37.21	γ = 90

Symmetry
Space Group	P 43 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		2021-07-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	1.0	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	1.09	55.232	99.9	0.999	29	22.9		48619

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	1.09	1.11			0.822

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	1.09	55.232	47681	2489	98.255	0.13	0.1292	0.1465	0.1516	0.1681	19.108

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]
0.193			0.193		-0.387

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.265
r_dihedral_angle_4_deg	20.739
r_rigid_bond_restr	15.291
r_dihedral_angle_3_deg	12.208
r_dihedral_angle_1_deg	6.758
r_mcangle_other	5.069
r_scangle_it	5.029
r_scangle_other	5.021
r_lrange_it	5.014
r_mcangle_it	5.007
r_mcbond_it	4.857
r_lrange_other	4.8
r_scbond_other	4.346
r_scbond_it	4.27
r_mcbond_other	4.161
r_angle_refined_deg	2.645
r_angle_other_deg	1.795
r_symmetry_xyhbond_nbd_refined	0.376
r_xyhbond_nbd_refined	0.311
r_nbd_refined	0.28
r_symmetry_nbd_refined	0.279
r_nbd_other	0.24
r_symmetry_nbd_other	0.203
r_nbtor_refined	0.183
r_chiral_restr	0.154
r_metal_ion_refined	0.136
r_symmetry_nbtor_other	0.093
r_bond_refined_d	0.021
r_symmetry_xyhbond_nbd_other	0.017
r_gen_planes_refined	0.015
r_bond_other_d	0.007
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1024
Nucleic Acid Atoms
Solvent Atoms	176
Heterogen Atoms	18

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing