9DT2 | pdb_00009dt2

Crystal structure of the engineered sulfonylurea repressor EsR (L7-D1), apo form

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2NS8

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		295	0.1 M HEPES sodium pH 7.5 2% v/v Polyethylene glycol 400 2.0 M Ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.69	54.27

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 72.44	α = 90
b = 72.44	β = 90
c = 95.19	γ = 90

Symmetry
Space Group	P 41 21 2

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	NOIR-1		2009-10-30	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 4.2.2	1	ALS	4.2.2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	3.1	45.147	100	0.122	12.8	7.5		4955

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.1	3.31			0.583

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	3.1	45.147	4955	261	99.899	0.237	0.2336	0.2419	0.2976	0.3019	64.023

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]
3.104			3.104		-6.208

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	18.619
r_dihedral_angle_6_deg	14.53
r_lrange_it	13.947
r_lrange_other	13.943
r_dihedral_angle_2_deg	11.248
r_scangle_it	9.711
r_scangle_other	9.706
r_mcangle_it	9.442
r_mcangle_other	9.439
r_dihedral_angle_1_deg	7.547
r_mcbond_it	5.939
r_mcbond_other	5.939
r_scbond_it	5.9
r_scbond_other	5.896
r_angle_refined_deg	1.745
r_angle_other_deg	0.572
r_nbd_refined	0.279
r_symmetry_nbd_other	0.213
r_nbd_other	0.206
r_xyhbond_nbd_refined	0.204
r_nbtor_refined	0.195
r_symmetry_xyhbond_nbd_refined	0.16
r_symmetry_nbd_refined	0.113
r_symmetry_nbtor_other	0.087
r_chiral_restr	0.08
r_symmetry_xyhbond_nbd_other	0.035
r_bond_refined_d	0.006
r_gen_planes_refined	0.006
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1365
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing