7CHY | pdb_00007chy

Crystal Structure Of Human Il-1beta In Complex With Antibody Binding Fragment Of IgG26

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	3.8	293	17% (w/v) PEG 3350, 10% (v/v) glycerol, and 0.1 M citric acid at pH 3.8.

Crystal Properties
Matthews coefficient	Solvent content
2.54	51.51

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 156.344	α = 90
b = 112.24	β = 94.847
c = 38.577	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 MX300-HS		2015-12-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE TPS 05A	1.0	NSRRC	TPS 05A

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	2.65	19.763	100	0.76	20.7	2.7		19167

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	2.65	2.74			0.76

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	FREE R-VALUE	2I1B	2.65	19.7	18103	963	93.696	0.203	0.1998	0.2	0.2535	0.25	64.403

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]
2.417		0.882	-2.815		0.245

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.821
r_dihedral_angle_3_deg	14.438
r_dihedral_angle_4_deg	13.349
r_dihedral_angle_1_deg	7.079
r_lrange_it	5.701
r_lrange_other	5.594
r_mcangle_it	2.606
r_mcangle_other	2.606
r_scangle_it	1.541
r_scangle_other	1.54
r_mcbond_it	1.402
r_mcbond_other	1.402
r_angle_refined_deg	1.264
r_angle_other_deg	1.106
r_scbond_it	0.744
r_scbond_other	0.744
r_nbd_other	0.179
r_symmetry_nbd_other	0.171
r_nbd_refined	0.165
r_nbtor_refined	0.156
r_xyhbond_nbd_refined	0.14
r_symmetry_nbd_refined	0.124
r_symmetry_xyhbond_nbd_refined	0.098
r_symmetry_nbtor_other	0.066
r_chiral_restr	0.042
r_bond_refined_d	0.004
r_bond_other_d	0.003
r_gen_planes_refined	0.003
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4428
Nucleic Acid Atoms
Solvent Atoms	280
Heterogen Atoms

Software

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