7CHZ

Crystal Structure Of Human Il-1beta In Complex With Antibody Binding Fragment Of IgG26A

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2I1B

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4	293	17% (w/v) PEG 3350, 10% (v/v) glycerol, and 0.1 M citric acid at pH 4.0

Crystal Properties
Matthews coefficient	Solvent content
2.6	52.61

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 155.694	α = 90
b = 112.699	β = 94.531
c = 38.935	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	98	CCD	RAYONIX MX-225		2016-12-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL44XU	0.9	SPring-8	BL44XU

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	2.48	25	98.9	0.88	28.8	3.7		23536

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	2.48	2.57			0.88

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	2I1B	2.5	23.941	22991	1142	98.916	0.196	0.1926	0.2595	52.161

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]
0.111		0.384	0.164		-0.332

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.57
r_dihedral_angle_4_deg	19.719
r_dihedral_angle_3_deg	16.187
r_dihedral_angle_1_deg	8.14
r_lrange_it	6.81
r_lrange_other	6.759
r_mcangle_it	3.958
r_mcangle_other	3.957
r_scangle_it	3.006
r_scangle_other	3.006
r_mcbond_it	2.223
r_mcbond_other	2.221
r_scbond_it	1.643
r_scbond_other	1.641
r_angle_refined_deg	1.58
r_angle_other_deg	1.215
r_symmetry_nbd_refined	0.237
r_nbd_other	0.22
r_symmetry_nbd_other	0.186
r_nbd_refined	0.18
r_xyhbond_nbd_refined	0.177
r_nbtor_refined	0.164
r_symmetry_xyhbond_nbd_refined	0.132
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.066
r_symmetry_xyhbond_nbd_other	0.033
r_bond_refined_d	0.009
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	4465
Nucleic Acid Atoms
Solvent Atoms	329
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
MOLREP	phasing