7ZU3 | pdb_00007zu3

Crystal Structure of Human Parechovirus 1 2A protein lacking the C-terminal oligomerisation helix

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	277	0.1M Hepes-NAOH pH7.0 15% PEG 4000

Crystal Properties
Matthews coefficient	Solvent content
2.04	39.62

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 50.692	α = 90
b = 71.666	β = 97.104
c = 32.704	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 PILATUS 2M		2015-02-21	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)	R Merge I (Observed)	Rpim 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	1.74	41.173	100	0.056	0.035	0.998	16.3	6.9		11948

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.74	1.77			1.094	0.675	0.651	1.7

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	SAD	THROUGHOUT	1.74	41.173	11948	582	100	0.201	0.1992	0.21	0.2257	0.24	33.538

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]
0.725		-0.379	1.272		-1.846

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	14.669
r_dihedral_angle_3_deg	13.117
r_dihedral_angle_2_deg	10.717
r_lrange_other	6.954
r_lrange_it	6.948
r_dihedral_angle_1_deg	6.163
r_scangle_it	4.897
r_scangle_other	4.894
r_mcangle_it	3.634
r_mcangle_other	3.632
r_scbond_it	3.218
r_scbond_other	3.215
r_mcbond_it	2.424
r_mcbond_other	2.422
r_angle_refined_deg	1.028
r_symmetry_xyhbond_nbd_refined	0.53
r_angle_other_deg	0.384
r_symmetry_nbd_refined	0.25
r_nbd_refined	0.22
r_nbtor_refined	0.18
r_symmetry_nbd_other	0.179
r_nbd_other	0.128
r_xyhbond_nbd_refined	0.123
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.053
r_gen_planes_refined	0.005
r_bond_refined_d	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1007
Nucleic Acid Atoms
Solvent Atoms	36
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing