8IPP

Crystal structure of the complex between an ankyrin and a parallel G-quadruplex

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7X7G
experimental model	PDB	8IPF

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2 M potassium chloride, 0.01 M magnesium chloride hexahydrate, 0.05 M MES monohydrate pH 5.6, 5% w/v polyethylene glycol 8,000

Crystal Properties
Matthews coefficient	Solvent content
2.71	54.66

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 76.759	α = 90
b = 83.587	β = 90
c = 31.858	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 315r		2021-12-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX2	0.953732	Australian Synchrotron	MX2

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	2.007	38.41	99.11	0.999	17.34	12.9		14343

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	2.01	2.082			0.979

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.007	38.38	14306	661	98.25	0.212	0.2109	0.2238	48.066

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]
-5.306			12.252		-6.947

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.388
r_dihedral_angle_3_deg	17.136
r_dihedral_angle_4_deg	12.314
r_lrange_it	8.001
r_scangle_it	6.871
r_dihedral_angle_1_deg	6.168
r_mcangle_it	5.323
r_scbond_it	5.161
r_mcbond_it	4.161
r_angle_refined_deg	1.971

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.388
r_dihedral_angle_3_deg	17.136
r_dihedral_angle_4_deg	12.314
r_lrange_it	8.001
r_scangle_it	6.871
r_dihedral_angle_1_deg	6.168
r_mcangle_it	5.323
r_scbond_it	5.161
r_mcbond_it	4.161
r_angle_refined_deg	1.971
r_symmetry_nbd_refined	0.627
r_nbd_refined	0.368
r_nbtor_refined	0.307
r_symmetry_xyhbond_nbd_refined	0.165
r_xyhbond_nbd_refined	0.155
r_chiral_restr	0.139
r_gen_planes_refined	0.009
r_bond_refined_d	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	962
Nucleic Acid Atoms	342
Solvent Atoms	86
Heterogen Atoms	5

Software

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.