6XAB | pdb_00006xab

Structure of the acetate-bound form of ArrX from Chrysiogenes arsenatis

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6X6B

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	0.2 M ammonium acetate, 0.1 M Tris pH 7.5, 20% (w/v) PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.32	47

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 46.663	α = 90
b = 52.927	β = 108.361
c = 54.967	γ = 90

Symmetry
Space Group	P 1 21 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 16M		2019-03-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX2	0.953	Australian Synchrotron	MX2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	1.78	40.67	96.7	0.992	4.4	2.8		23640

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.78	1.82			0.374

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	THROUGHOUT	6X6B	1.781	40.67	22438	1164	96.382	0.191	0.189	0.2	0.2216	0.23	28.407

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]
1.255		1.149	-1.654		-0.298

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.513
r_dihedral_angle_4_deg	13.549
r_dihedral_angle_3_deg	12.94
r_dihedral_angle_1_deg	6.076
r_lrange_it	5.897
r_lrange_other	5.896
r_scangle_it	3.588
r_scangle_other	3.586
r_mcangle_it	2.307
r_mcangle_other	2.307
r_scbond_it	2.25
r_scbond_other	2.249
r_mcbond_it	1.534
r_mcbond_other	1.522
r_angle_refined_deg	1.316
r_angle_other_deg	1.237
r_nbd_refined	0.194
r_symmetry_nbd_refined	0.18
r_symmetry_xyhbond_nbd_refined	0.179
r_symmetry_nbd_other	0.176
r_xyhbond_nbd_refined	0.164
r_nbtor_refined	0.161
r_nbd_other	0.151
r_symmetry_xyhbond_nbd_other	0.094
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.06
r_gen_planes_refined	0.006
r_bond_refined_d	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2019
Nucleic Acid Atoms
Solvent Atoms	115
Heterogen Atoms	4

Software

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