7XH0

crystal structure of Csn-PD from Paenibacillus dendritiformis

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.1M Citric acid pH3.5, 25% PEG3,350

Crystal Properties
Matthews coefficient	Solvent content
1.82	32.51

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 68.51	α = 90
b = 73.138	β = 90
c = 99.975	γ = 90

Symmetry
Space Group	C 2 2 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 PILATUS3 6M		2021-08-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	1.18071	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	1.68	44.72	99.4	0.052	21.7	6.6		28796

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	1.68	1.71			0.446

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	2d05	1.68	44.72	28766	1455	99.244	0.152	0.1497	0.1951	21.494

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]
2.846			-1.079		-1.767

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.463
r_dihedral_angle_4_deg	17.218
r_dihedral_angle_3_deg	11.945
r_dihedral_angle_1_deg	5.718
r_lrange_it	5.576
r_lrange_other	5.496
r_scangle_it	4.6
r_scangle_other	4.598
r_scbond_it	3.022
r_scbond_other	3.021
r_mcangle_other	2.27
r_mcangle_it	2.269
r_mcbond_it	1.656
r_angle_refined_deg	1.639
r_mcbond_other	1.63
r_angle_other_deg	1.557
r_symmetry_nbd_refined	0.242
r_nbd_refined	0.22
r_nbd_other	0.184
r_symmetry_nbd_other	0.181
r_nbtor_refined	0.179
r_symmetry_xyhbond_nbd_refined	0.176
r_xyhbond_nbd_refined	0.167
r_symmetry_xyhbond_nbd_other	0.116
r_chiral_restr	0.087
r_symmetry_nbtor_other	0.083
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2030
Nucleic Acid Atoms
Solvent Atoms	238
Heterogen Atoms	17

Software

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