7PA9

JC polyomavirus VP1 in complex with Fab 98D3

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	277.15	0.1 M Ammonium tartrate dibasic pH 7.0, 12% (w/v) PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 170.97	α = 90
b = 202.31	β = 90
c = 251.66	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	93	PIXEL	DECTRIS PILATUS 2M		2015-11-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	0.999990	SLS	X06DA

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	2.75	50	100	0.99	11.99	13.8		225685

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	2.75	2.85			0.68

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	3NXG, 5BVJ	2.75	49.153	225685	11285	99.957	0.21	0.2068	0.2628	45.959

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]
-0.966			5.19		-4.224

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.298
r_dihedral_angle_4_deg	17.467
r_dihedral_angle_3_deg	16.705
r_lrange_it	7.973
r_lrange_other	7.973
r_dihedral_angle_1_deg	7.709
r_mcangle_it	4.584
r_mcangle_other	4.584
r_scangle_it	4.416
r_scangle_other	4.416
r_mcbond_it	2.863
r_mcbond_other	2.863
r_scbond_it	2.729
r_scbond_other	2.729
r_angle_other_deg	2.441
r_angle_refined_deg	1.676
r_symmetry_nbd_refined	0.257
r_symmetry_xyhbond_nbd_refined	0.239
r_nbd_other	0.232
r_symmetry_nbd_other	0.219
r_nbd_refined	0.196
r_nbtor_refined	0.165
r_xyhbond_nbd_refined	0.152
r_symmetry_xyhbond_nbd_other	0.082
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.066
r_bond_other_d	0.036
r_xyhbond_nbd_other	0.016
r_bond_refined_d	0.006
r_gen_planes_other	0.006
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	50676
Nucleic Acid Atoms
Solvent Atoms	346
Heterogen Atoms

Software

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