2F7A

BenM effector binding domain with its effector, cis,cis-muconate

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2F6P	PDB Entry 2F6P

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	microbatch under oil		288	PEG 4000, ammonium sulfate, sodium acetate, NaCl, tris, glycerol, imidazole, microbatch under oil, temperature 288K

Crystal Properties
Matthews coefficient	Solvent content
2.38	48.26

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 64.741	α = 90
b = 65.777	β = 90
c = 117.974	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	CCD	MARRESEARCH				SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-BM	1.00727	APS	19-BM

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	1.5	59.028	59.1	0.053	25.8	4.46	54680	54680			24.51076

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.49	1.55	0.6		0.3		53

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB Entry 2F6P	1.9	59.028	35808	35808	1788	88.526	0.209	0.209	0.207	0.2503	RANDOM	30.727

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]
0.556			1.313		-1.869

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.341
r_dihedral_angle_4_deg	16.683
r_dihedral_angle_3_deg	13.188
r_dihedral_angle_1_deg	5.434
r_scangle_it	3.565
r_scbond_it	2.662
r_scangle_other	1.527
r_mcangle_it	1.475
r_angle_refined_deg	1.094
r_mcbond_it	1.037
r_scbond_other	1.023
r_angle_other_deg	0.74
r_mcangle_other	0.65
r_nbd_refined	0.181
r_symmetry_vdw_other	0.173
r_nbd_other	0.169
r_nbtor_refined	0.169
r_xyhbond_nbd_refined	0.146
r_symmetry_hbond_refined	0.136
r_mcbond_other	0.097
r_symmetry_vdw_refined	0.09
r_nbtor_other	0.079
r_chiral_restr	0.061
r_bond_refined_d	0.008
r_gen_planes_refined	0.003
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3517
Nucleic Acid Atoms
Solvent Atoms	481
Heterogen Atoms	37

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
MOLREP	phasing