7Z3M | pdb_00007z3m

Putative Phage Recombinase UvsX

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	100mM MES pH 6.5 1.6M ammonium sulphate 6% 1,4-Dioxane

Crystal Properties
Matthews coefficient	Solvent content
2.96	58.46

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 90.895	α = 90
b = 90.895	β = 90
c = 101.438	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 PILATUS3 6M		2019-04-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.9686	Diamond	I24

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim 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	45.45	99.7	0.092	0.098	0.043	0.999	10.4	9.9		32113			43

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.05	98.2		1.723	0.45	0.95	4.9

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	3IO5	2.001	41.509	32070	1509	99.835	0.206	0.2039	0.21	0.2506	0.25	54.435

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]
1.289	0.645		1.289		-4.182

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.061
r_dihedral_angle_4_deg	22.737
r_dihedral_angle_3_deg	14.303
r_lrange_it	8.917
r_lrange_other	8.917
r_scangle_it	7.586
r_scangle_other	7.583
r_dihedral_angle_1_deg	7.251
r_mcangle_it	6.478
r_mcangle_other	6.476
r_scbond_it	5.572
r_scbond_other	5.572
r_mcbond_it	5.105
r_mcbond_other	5.097
r_angle_refined_deg	1.605
r_angle_other_deg	1.421
r_symmetry_xyhbond_nbd_refined	0.239
r_nbd_refined	0.213
r_symmetry_nbd_other	0.187
r_nbtor_refined	0.169
r_nbd_other	0.152
r_xyhbond_nbd_refined	0.148
r_symmetry_nbd_refined	0.094
r_symmetry_nbtor_other	0.077
r_chiral_restr	0.076
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2252
Nucleic Acid Atoms
Solvent Atoms	35
Heterogen Atoms	5

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
Arcimboldo	phasing
BUCCANEER	model building