5I82

First Crystal Structure of E.coli Based Recombinant Diphtheria Toxin Mutant CRM197

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	292	Protein: 22.9 mg/ml, 0.15M Sodium chloride,0.01M Tris-HCL (pH 8.3); Screen: Classics II (G2), 0.2M Lithium sulfate, 0.1M Bis-Tris (pH 5.5), 25% (w/v) PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.52	51.2

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.214	α = 90.09
b = 69.167	β = 90.01
c = 127.882	γ = 82.02

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	CCD	MARMOSAIC 225 mm CCD		2015-04-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 21-ID-F	0.97872	APS	21-ID-F

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	2.35	30	98.4	0.051	0.051	18.2	2.6		98137		-3	57.5

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.35	2.39	97.7		0.424	2.3	2.6

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	4AE1	2.35	29.08	91347	4932	98.39	0.20958	0.20722	0.25026	RANDOM	66.023

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]
1.84	-1.35	1.23	-1.5	-2.22	-0.66

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.222
r_dihedral_angle_3_deg	8.712
r_long_range_B_refined	7.01
r_long_range_B_other	7.01
r_dihedral_angle_4_deg	6.066
r_scangle_other	4.263
r_mcangle_other	3.505
r_mcangle_it	3.504
r_scbond_it	2.676
r_scbond_other	2.676
r_dihedral_angle_1_deg	2.429
r_mcbond_it	2.3
r_mcbond_other	2.298
r_angle_refined_deg	1.174
r_angle_other_deg	0.669
r_chiral_restr	0.069
r_gen_planes_refined	0.019
r_gen_planes_other	0.016
r_bond_refined_d	0.007
r_bond_other_d	0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	15714
Nucleic Acid Atoms
Solvent Atoms	351
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
BLU-MAX	data collection
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing