6X6Y | pdb_00006x6y

Crystal structure of acetyltransferase Eis from Mycobacterium tuberculosis in complex with inhibitor SGT1264

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6X10

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	295	0.1 M Tris-HCl pH 8.5, 13% PEG 8000 and 0.4 M (NH4)2SO4, 5mM kanamycin, 4 mM CoA. On soaking, replace CoA, KAN and (NH4)2SO4 with 0.5 mM inhibitor

Crystal Properties
Matthews coefficient	Solvent content
4.02	69.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 175.483	α = 90
b = 175.483	β = 90
c = 124.81	γ = 120

Symmetry
Space Group	H 3 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	PIXEL	DECTRIS EIGER X 16M		2018-07-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	1.00	APS	22-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.5	50	99.9	0.1	1	15.4	6.4		25879

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.5	2.54			0.65	0.78

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	6X10	2.5	39.966	25453	1297	99.406	0.176	0.1736	0.18	0.2131	0.22	35.856

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]
-1.854	-0.927		-1.854		6.015

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.075
r_dihedral_angle_4_deg	19.346
r_dihedral_angle_3_deg	15.401
r_dihedral_angle_1_deg	6.866
r_lrange_it	6.139
r_lrange_other	6.115
r_scangle_it	4.023
r_scangle_other	4.022
r_mcangle_it	3.199
r_mcangle_other	3.198
r_scbond_it	2.413
r_scbond_other	2.412
r_mcbond_it	1.87
r_mcbond_other	1.87
r_angle_refined_deg	1.326
r_angle_other_deg	1.149
r_nbd_refined	0.188
r_symmetry_nbd_other	0.184
r_nbd_other	0.183
r_nbtor_refined	0.15
r_xyhbond_nbd_refined	0.149
r_symmetry_nbd_refined	0.136
r_symmetry_nbtor_other	0.078
r_symmetry_xyhbond_nbd_refined	0.059
r_chiral_restr	0.055
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_symmetry_xyhbond_nbd_other	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	3032
Nucleic Acid Atoms
Solvent Atoms	230
Heterogen Atoms	68

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing