7ZUO | pdb_00007zuo

Crystal Structure of Ljungan virus 4 2A2 protein, P212121 form

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7ZUA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8	291	0.1M Tris-HCl pH8.0 8% PEG 6000 0.15M NaCl

Crystal Properties
Matthews coefficient	Solvent content
3.07	59.95

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 83.179	α = 90
b = 100.314	β = 90
c = 120.247	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	100	PIXEL	DECTRIS PILATUS 2M		2014-06-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	0.9782	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	2.07	48.775	99.7	0.081	0.053	0.998	11.6	3.4		61727

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	2.07	2.12			0.733	0.638	0.559

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	7ZUA	2.07	48.775	61679	3050	99.519	0.174	0.1723	0.18	0.2046	0.21	41.499

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]
0.432			0.841		-1.274

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.528
r_dihedral_angle_3_deg	14.134
r_dihedral_angle_2_deg	12.381
r_dihedral_angle_1_deg	7.178
r_lrange_it	7.143
r_lrange_other	7.143
r_mcangle_it	3.542
r_mcangle_other	3.541
r_scangle_it	3.269
r_scangle_other	3.269
r_scbond_other	2.088
r_scbond_it	2.087
r_mcbond_it	2.079
r_mcbond_other	2.071
r_angle_refined_deg	1.331
r_angle_other_deg	0.451
r_nbd_other	0.221
r_nbd_refined	0.21
r_symmetry_nbd_refined	0.208
r_symmetry_nbd_other	0.183
r_nbtor_refined	0.177
r_xyhbond_nbd_refined	0.152
r_symmetry_xyhbond_nbd_refined	0.124
r_symmetry_nbtor_other	0.081
r_metal_ion_refined	0.078
r_chiral_restr	0.062
r_chiral_restr_other	0.012
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5749
Nucleic Acid Atoms
Solvent Atoms	341
Heterogen Atoms	47

Software

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