8CQ6

Bifunctional cyclohexadienyl dehydratase/chorismate mutase from Duganella sacchari

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	8CQ4

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	277.15	3 M NaCl 0.1 M Bis-TRIS, pH 5.5 5.6 mg/mL protein in 20 mM TRIS-HCl

Crystal Properties
Matthews coefficient	Solvent content
3.17	61.2

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 92.108	α = 90
b = 111.93	β = 90
c = 221.386	γ = 90

Symmetry
Space Group	P 21 21 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 EIGER X 16M		2020-04-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	0.984	MAX IV	BioMAX

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	2.44	99.9	94	0.994	7.8	13.2		51859

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	2.44	2.66			0.124	1.5	12.9

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	2.44	99.9	51858	2573	60.296	0.227	0.2248	0.265	58.539

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]
0.266			0.089		-0.355

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.795
r_dihedral_angle_3_deg	21.632
r_dihedral_angle_6_deg	18.241
r_dihedral_angle_1_deg	11.019
r_lrange_it	8.538
r_lrange_other	8.537
r_scangle_it	5.923
r_scangle_other	5.923
r_mcangle_it	5.169
r_mcangle_other	5.169
r_scbond_it	3.48
r_scbond_other	3.48
r_mcbond_it	3.189
r_mcbond_other	3.189
r_angle_refined_deg	0.908
r_angle_other_deg	0.311
r_nbd_other	0.229
r_nbd_refined	0.213
r_symmetry_nbd_other	0.178
r_nbtor_refined	0.175
r_xyhbond_nbd_refined	0.154
r_symmetry_nbd_refined	0.152
r_metal_ion_refined	0.125
r_ncsr_local_group_4	0.094
r_ncsr_local_group_2	0.091
r_ncsr_local_group_3	0.086
r_ncsr_local_group_5	0.081
r_ncsr_local_group_6	0.077
r_symmetry_nbtor_other	0.075
r_ncsr_local_group_1	0.061
r_chiral_restr	0.041
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_symmetry_xyhbond_nbd_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	12009
Nucleic Acid Atoms
Solvent Atoms	71
Heterogen Atoms	10

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
STARANISO	data scaling
PHASER	phasing