7PAA

JC polyomavirus VP1 in complex with scFv 29B1

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277.15	0.2 M trimethanolamine N-oxide, 0.1 M Tris (pH 8.5), 20% PEG 2000

Crystal Properties
Matthews coefficient	Solvent content
2.9	57.63

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 124.127	α = 90
b = 172.53	β = 104.527
c = 159.71	γ = 90

Symmetry
Space Group	P 1 21 1

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-F		2016-10-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	0.9794	SLS	X06DA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim 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	3	48.5	99.8	0.23	0.99	10.37	7.06		129715

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3	3.18			0.95	0.72	2.21

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, 4KQ3	3.102	48.507	117609	5881	99.926	0.225	0.2246	0.24	44.614

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]
1.331		-0.675	0.489		-1.296

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.279
r_dihedral_angle_3_deg	15.381
r_dihedral_angle_4_deg	12.846
r_dihedral_angle_1_deg	7.218
r_lrange_it	4.385
r_lrange_other	4.383
r_mcangle_it	4.14
r_mcangle_other	4.14
r_mcbond_it	2.659
r_mcbond_other	2.659
r_scangle_it	2.517
r_scangle_other	2.517
r_angle_other_deg	2.394
r_scbond_it	1.474
r_scbond_other	1.474
r_angle_refined_deg	1.296
r_nbd_other	0.418
r_symmetry_nbd_refined	0.35
r_symmetry_xyhbond_nbd_refined	0.348
r_xyhbond_nbd_other	0.208
r_symmetry_nbd_other	0.206
r_nbd_refined	0.181
r_nbtor_refined	0.158
r_xyhbond_nbd_refined	0.118
r_symmetry_nbtor_other	0.068
r_chiral_restr	0.049
r_bond_other_d	0.036
r_symmetry_xyhbond_nbd_other	0.018
r_bond_refined_d	0.005
r_gen_planes_refined	0.004
r_gen_planes_other	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	37635
Nucleic Acid Atoms
Solvent Atoms	23
Heterogen Atoms

Software

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