6A2Q | pdb_00006a2q

Mycobacterium tuberculosis LexA C-domain I

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1UMU

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH		298	Tris-Hcl, Glycerol, Pentaerythritol ethoxylate

Crystal Properties
Matthews coefficient	Solvent content
2.59	52.63

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.62	α = 90
b = 42.62	β = 90
c = 116.05	γ = 120

Symmetry
Space Group	P 31 2 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		2015-12-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM14	0.9537	ESRF	BM14

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	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	1.48	22.82	99.7	0.059	0.026	0.999	14.5	5.9		21096

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.48	1.48	99.7		0.608	0.275	0.917	14.5

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	IUMU	1.48	22.82	20030	1041	99.39	0.15061	0.14809	0.15	0.19712	0.2	RANDOM	26.567

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]
0.4	0.2		0.4		-1.3

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	31.98
r_dihedral_angle_2_deg	30.837
r_dihedral_angle_4_deg	24.8
r_sphericity_bonded	17.311
r_dihedral_angle_3_deg	12.167
r_dihedral_angle_1_deg	7.252
r_long_range_B_other	6.252
r_long_range_B_refined	6.246
r_scangle_other	4.741
r_scbond_it	3.994
r_scbond_other	3.994
r_mcangle_it	3.754
r_mcangle_other	3.754
r_rigid_bond_restr	3.482
r_mcbond_it	2.96
r_mcbond_other	2.957
r_angle_refined_deg	1.567
r_angle_other_deg	0.53
r_chiral_restr	0.081
r_bond_refined_d	0.015
r_gen_planes_refined	0.008
r_gen_planes_other	0.002
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

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	728
Nucleic Acid Atoms
Solvent Atoms	178
Heterogen Atoms	6

Software

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