8Y74

Crystal structure of 9-mer peptide from H9N2 avian influenza virus in complex with BF2*0201

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4D0D

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291.15	0.1 M Imidazole pH 7.0, 20% w/v Polyethylene glycol 6,000

Crystal Properties
Matthews coefficient	Solvent content
2.41	48.93

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 125.782	α = 90
b = 76.553	β = 92.449
c = 87.143	γ = 90

Symmetry
Space Group	C 1 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	PIXEL	DECTRIS EIGER2 S 9M		2022-08-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL02U1	0.979183	SSRF	BL02U1

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	1.9	43.532	100	0.996	9.1	6.5		65173

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	1.9	1.95	100		0.438	2	5.9

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.9	43.532	65152	3321	99.951	0.206	0.2039	0.2402	39.556

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]
-0.5		-0.321	0.233		0.293

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	14.48
r_dihedral_angle_3_deg	13.485
r_dihedral_angle_2_deg	6.879
r_dihedral_angle_1_deg	6.874
r_lrange_it	4.911
r_lrange_other	4.869
r_scangle_it	3.687
r_scangle_other	3.687
r_scbond_it	2.394
r_scbond_other	2.394
r_mcangle_it	2.384
r_mcangle_other	2.383
r_angle_refined_deg	1.645
r_mcbond_it	1.588
r_mcbond_other	1.586
r_angle_other_deg	0.592
r_nbd_refined	0.208
r_symmetry_nbd_other	0.198
r_nbtor_refined	0.183
r_symmetry_xyhbond_nbd_refined	0.18
r_xyhbond_nbd_refined	0.149
r_symmetry_xyhbond_nbd_other	0.111
r_nbd_other	0.11
r_symmetry_nbd_refined	0.104
r_chiral_restr	0.086
r_symmetry_nbtor_other	0.085
r_bond_refined_d	0.009
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	6091
Nucleic Acid Atoms
Solvent Atoms	251
Heterogen Atoms

Software

Software
Software Name	Purpose
xia2	data reduction
xia2	data scaling
PHASER	phasing
REFMAC	refinement