1NYW

The high resolution structures of RmlC from Streptoccus suis in complex with dTDP-D-glucose

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.4	298	0.1 M Tris, 4 mM NiCl2,40% PEG 2000, pH 8.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.66	25.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 50.586	α = 90
b = 47.895	β = 99.02
c = 72.417	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	120	CCD	ADSC QUANTUM 4	Diamond		M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-2	0.933	ESRF	ID14-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.6	29.88	95.7	0.098	0.083	5.2	3.5	43875	43352	1.151	1.8	24.3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.6	1.69	79.8		0.366	0.292	1.8	2.7	5230

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.6	29.88	43352	41144	2190	95.45	0.175	0.17486	0.17257	0.21679	RANDOM	18.893

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]
0.52		-0.09	-0.88		0.33

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.625
r_scangle_it	3.68
r_sphericity_free	3.516
r_scbond_it	2.688
r_sphericity_bonded	2.309
r_mcangle_it	2.043
r_angle_refined_deg	1.822
r_rigid_bond_restr	1.627
r_mcbond_it	1.593
r_angle_other_deg	0.979
r_nbd_other	0.259
r_symmetry_vdw_other	0.244
r_symmetry_hbond_refined	0.229
r_xyhbond_nbd_refined	0.206
r_nbd_refined	0.202
r_symmetry_vdw_refined	0.17
r_chiral_restr	0.117
r_nbtor_other	0.089
r_bond_refined_d	0.019
r_gen_planes_refined	0.009
r_gen_planes_other	0.005
r_bond_other_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3145
Nucleic Acid Atoms
Solvent Atoms	507
Heterogen Atoms	72

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
SOLVE	phasing
REFMAC	refinement
CCP4	data scaling