7ZAL | pdb_00007zal

FNIP family proteins from Cafeteria roenbergensis virus (CroV): leucine-rich repeats with novel structural features

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	Other		homology model

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	293	0.1M Bis-TRIS pH 6.5, 10% PEG10,000, 0.2M Potassium Sodium Tartrate tetrahydrate.

Crystal Properties
Matthews coefficient	Solvent content
3.31	63

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 101.012	α = 90
b = 113.453	β = 90
c = 236.242	γ = 90

Symmetry
Space Group	P 2 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 EIGER2 S 16M		2021-06-14	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	1.0	SLS	X10SA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.73	49.46	99.7	0.034	0.99	14.4	13.8		999128

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.73	2.79	95		0.788	0.44	1	13.6

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	FREE R-VALUE	homology model	2.732	49.439	72536	3577	99.662	0.222	0.2197	0.22	0.2666	0.26	89.209

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]
9.787			-9.174		-0.613

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.581
r_dihedral_angle_3_deg	13.268
r_dihedral_angle_4_deg	8.531
r_dihedral_angle_1_deg	6.271
r_lrange_it	4.991
r_lrange_other	4.957
r_angle_other_deg	1.249
r_mcangle_it	1.152
r_mcangle_other	1.152
r_angle_refined_deg	1.112
r_scangle_it	0.815
r_scangle_other	0.815
r_mcbond_it	0.638
r_mcbond_other	0.638
r_scbond_it	0.437
r_scbond_other	0.437
r_symmetry_nbd_refined	0.38
r_nbd_other	0.34
r_symmetry_xyhbond_nbd_refined	0.302
r_xyhbond_nbd_refined	0.217
r_symmetry_nbd_other	0.189
r_nbtor_refined	0.17
r_nbd_refined	0.169
r_symmetry_xyhbond_nbd_other	0.077
r_symmetry_nbtor_other	0.072
r_xyhbond_nbd_other	0.063
r_chiral_restr	0.049
r_bond_refined_d	0.005
r_gen_planes_refined	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	14496
Nucleic Acid Atoms
Solvent Atoms	304
Heterogen Atoms

Software

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