8K55 | pdb_00008k55

Crystal structure of sulfur transferase from Frondihabitans sp. PAMC28461 crystallized in the P1 space group

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	298	10% w/v PEG 20,000, 20% v/v PEG MME 550, 0.03 M of magnesium chloride and calcium chloride, and 0.1 M MOPS/HEPES-Na pH 7.5

Crystal Properties
Matthews coefficient	Solvent content
2.32	47.08

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 35.25	α = 89.063
b = 61.6	β = 76.302
c = 74.08	γ = 79.637

Symmetry
Space Group	P 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		2016-03-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PAL/PLS BEAMLINE 5C (4A)	0.9794	PAL/PLS	5C (4A)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2	28.91	96.5	0.072	0.99	3.6	3.6		38820

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	2	2.05			0.923

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2	28.192	38819	1935	96.457	0.218	0.2152	0.22	0.269	0.27	24.55

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]
0.025	0.071	-0.083	-0.012	-0.034	-0.013

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.821
r_dihedral_angle_4_deg	16.966
r_dihedral_angle_3_deg	13.918
r_dihedral_angle_1_deg	7.77
r_lrange_it	5.019
r_lrange_other	4.993
r_scangle_it	3.337
r_scangle_other	3.337
r_mcangle_it	2.935
r_mcangle_other	2.935
r_scbond_it	2.172
r_scbond_other	2.171
r_mcbond_it	1.997
r_mcbond_other	1.996
r_angle_refined_deg	1.523
r_angle_other_deg	1.308
r_symmetry_nbd_refined	0.274
r_symmetry_xyhbond_nbd_refined	0.226
r_nbd_refined	0.206
r_symmetry_nbd_other	0.186
r_xyhbond_nbd_refined	0.169
r_nbtor_refined	0.167
r_nbd_other	0.147
r_symmetry_xyhbond_nbd_other	0.125
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.067
r_bond_refined_d	0.008
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	4610
Nucleic Acid Atoms
Solvent Atoms	314
Heterogen Atoms

Software

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