6XPK | pdb_00006xpk

CutR Screw, form 1 with 41.9 angstrom pitch

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6XPH

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.2	298	10% (w/v) PEG 3000, 200mM sodium chloride and 100 mM sodium phosphate dibasic/Citric acid pH 4.2

Crystal Properties
Matthews coefficient	Solvent content
1.74	29.17

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 61.83	α = 90
b = 61.83	β = 90
c = 41.93	γ = 120

Symmetry
Space Group	P 61

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 6M-F		2019-10-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-C	0.9791	APS	24-ID-C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	2.8	53.546	99.4	0.113	0.119	0.999	15.46	9.512		2305			60.631

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.8	2.87	95.8		0.954	1.009	0.722	2.22	9.379

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	6XPH	2.8	53.546	2305	231	99.353	0.234	0.2308	0.23	0.2669	0.27	61.244

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]
-1.548	-0.774		-1.548		5.021

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.714
r_dihedral_angle_3_deg	15.204
r_dihedral_angle_4_deg	10.332
r_lrange_other	6.303
r_lrange_it	6.299
r_dihedral_angle_1_deg	5.762
r_mcangle_it	3.867
r_mcangle_other	3.867
r_scangle_other	3.214
r_scangle_it	3.213
r_mcbond_it	2.205
r_mcbond_other	2.194
r_scbond_it	1.79
r_scbond_other	1.785
r_angle_refined_deg	1.234
r_angle_other_deg	1.04
r_symmetry_xyhbond_nbd_refined	0.219
r_nbd_refined	0.168
r_nbd_other	0.162
r_symmetry_nbd_other	0.161
r_nbtor_refined	0.141
r_symmetry_nbtor_other	0.106
r_symmetry_nbd_refined	0.1
r_xyhbond_nbd_refined	0.073
r_chiral_restr	0.03
r_bond_refined_d	0.002
r_gen_planes_refined	0.002
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	734
Nucleic Acid Atoms
Solvent Atoms	2
Heterogen Atoms

Software

Software
Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction