7NXZ

Synthetic glycoform of Human Interleukin 6

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1ALU

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.2-0.25 M sodium malonate, pH 7.0 and 18-22% (w/v) PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.93	58.01

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 72.1	α = 90
b = 129.02	β = 90
c = 50.1	γ = 90

Symmetry
Space Group	C 2 2 21

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		2015-02-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.918007	BESSY	14.1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	1.998	50	98.2	0.07	0.084	0.999	10.62	3.22		16028			46.024

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.998	2.12	95.9		1.412	1.67	0.434	0.72	3.38

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	MOLECULAR REPLACEMENT	FREE R-VALUE	1alu	1.998	39.569	16028	802	98.622	0.209	0.2063	0.2526	52.097

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]
2.71			-1.547		-1.163

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.386
r_dihedral_angle_4_deg	21.345
r_dihedral_angle_3_deg	16.337
r_lrange_it	6.89
r_lrange_other	6.703
r_dihedral_angle_1_deg	5.378
r_scangle_it	4.214
r_scangle_other	4.214
r_mcangle_other	3.264
r_mcangle_it	3.247
r_scbond_it	2.749
r_scbond_other	2.745
r_mcbond_it	2.113
r_mcbond_other	2.071
r_angle_refined_deg	1.647
r_angle_other_deg	1.351
r_nbd_other	0.23
r_nbd_refined	0.207
r_symmetry_nbd_refined	0.202
r_symmetry_nbd_other	0.173
r_nbtor_refined	0.162
r_xyhbond_nbd_refined	0.139
r_symmetry_xyhbond_nbd_refined	0.133
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.077
r_bond_refined_d	0.012
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1233
Nucleic Acid Atoms
Solvent Atoms	83
Heterogen Atoms

Software

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