7ZMT

Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody (Gluebody) G5-006

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2M sodium formate -- 20% PEG3350

Crystal Properties
Matthews coefficient	Solvent content
3.25	62.1

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 82.355	α = 90
b = 90.675	β = 90.754
c = 217.853	γ = 90

Symmetry
Space Group	I 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 PILATUS3 6M		2020-04-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9762	Diamond	I03

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	2.13	60.94	99.3	0.9	9	6.9		89383

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	2.13	2.16	95		0.5

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	5LB5	2.3	56.743	71015	3471	99.533	0.265	0.2636	0.291	72.529

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]
5.36		6.029	-6.964		1.444

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.04
r_lrange_it	18.008
r_lrange_other	18.008
r_dihedral_angle_3_deg	16.663
r_dihedral_angle_4_deg	14.423
r_mcangle_other	12.481
r_mcangle_it	12.479
r_scangle_it	12.11
r_scangle_other	12.11
r_mcbond_it	8.513
r_mcbond_other	8.499
r_scbond_it	7.889
r_scbond_other	7.888
r_dihedral_angle_1_deg	6.764
r_angle_refined_deg	1.522
r_angle_other_deg	1.304
r_nbd_other	0.245
r_symmetry_xyhbond_nbd_refined	0.211
r_nbd_refined	0.199
r_symmetry_nbd_other	0.184
r_ncsr_local_group_2	0.178
r_symmetry_nbd_refined	0.174
r_nbtor_refined	0.161
r_xyhbond_nbd_refined	0.143
r_symmetry_nbtor_other	0.08
r_ncsr_local_group_1	0.076
r_chiral_restr	0.069
r_symmetry_xyhbond_nbd_other	0.059
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	8729
Nucleic Acid Atoms
Solvent Atoms	83
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing