7L7Z

x-ray structure of the N-acetyltransferase Pcryo_0637 from psychrobacter cryohalolentis in the presence of coenzyme A and UDP-di-N-acetyl-bacillosamine

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7L7Y

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	293	23-26% MPD, 100 mM HEPES. protein incubated with 5 mM coenzyme A and 20 mM UDP-2,4-diacetamido-2,4,6-trideoxy-D-glucose

Crystal Properties
Matthews coefficient	Solvent content
2.54	51.62

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 96.898	α = 90
b = 96.898	β = 90
c = 66.63	γ = 120

Symmetry
Space Group	H 3

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	Bruker PHOTON II		2019-09-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SEALED TUBE	BRUKER D8 QUEST	1.54718

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.55	50	98.1	0.045	19.6	5.1		33312

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.55	1.65	95		0.341	3	2.4

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	FOURIER SYNTHESIS	FREE R-VALUE	7l7y	1.55	30.983	33312	1712	98.124	0.164	0.162	0.1903	18.657

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]
0.228	0.114		0.228		-0.739

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.108
r_dihedral_angle_4_deg	20.082
r_dihedral_angle_3_deg	12.744
r_dihedral_angle_1_deg	7.971
r_lrange_other	5.323
r_lrange_it	5.321
r_scangle_it	3.971
r_scangle_other	3.97
r_scbond_it	2.803
r_scbond_other	2.802
r_mcangle_other	2.318
r_mcangle_it	2.316
r_mcbond_it	1.662
r_mcbond_other	1.653
r_angle_refined_deg	1.634
r_angle_other_deg	1.367
r_nbd_other	0.312
r_symmetry_nbd_refined	0.301
r_symmetry_xyhbond_nbd_refined	0.261
r_nbd_refined	0.203
r_xyhbond_nbd_refined	0.193
r_symmetry_nbd_other	0.182
r_nbtor_refined	0.161
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.066
r_xyhbond_nbd_other	0.03
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	1612
Nucleic Acid Atoms
Solvent Atoms	225
Heterogen Atoms	130

Software

Software
Software Name	Purpose
REFMAC	refinement
SAINT	data reduction
SADABS	data scaling
PHASER	phasing