8XQU

The Crystal Structure of ClpC1-NTD from Biortus.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3WDB

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	4.0M Na formate

Crystal Properties
Matthews coefficient	Solvent content
3.19	61.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 56.286	α = 90
b = 56.286	β = 90
c = 111.669	γ = 120

Symmetry
Space Group	P 31 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 EIGER X 9M		2020-08-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	1.18060	CLSI	08ID-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.85	43.72	100	0.036	29.9	9.5		18178

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.89			0.843	2.7

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	1.85	43.72	18139	919	99.978	0.176	0.1751	0.2008	44.855

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]
0.246	0.123		0.246		-0.799

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	14.802
r_dihedral_angle_6_deg	14.721
r_dihedral_angle_2_deg	12.277
r_lrange_it	10.835
r_lrange_other	10.834
r_scangle_it	9.73
r_scangle_other	9.724
r_scbond_other	7.157
r_scbond_it	7.153
r_mcangle_other	6.142
r_mcangle_it	6.126
r_dihedral_angle_1_deg	5.366
r_mcbond_it	4.42
r_mcbond_other	4.417
r_angle_refined_deg	1.422
r_angle_other_deg	0.483
r_xyhbond_nbd_refined	0.268
r_symmetry_xyhbond_nbd_refined	0.268
r_nbd_other	0.238
r_nbd_refined	0.223
r_symmetry_nbd_other	0.182
r_nbtor_refined	0.179
r_symmetry_nbd_refined	0.163
r_chiral_restr	0.075
r_symmetry_nbtor_other	0.073
r_xyhbond_nbd_other	0.069
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1126
Nucleic Acid Atoms
Solvent Atoms	87
Heterogen Atoms	17

Software

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