1XMA | pdb_00001xma

Structure of a transcriptional regulator from Clostridium thermocellum Cth-833

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		8.5	291	8.5% v/v isopropanol, 10% w/v PEG 4000, 15% v/v glycerol, 0.085M TRIS, modified microbatch, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
1.8	31.81

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.483	α = 90
b = 52.16	β = 92.46
c = 51.076	γ = 90

Symmetry
Space Group	P 1 21 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	RIGAKU SATURN 92			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RU200

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	2.2	30		0.049				10985

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.2	2.28	43.8		0.151

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	2.301	18.239	9669	518	100	0.20853	0.20534	0.23	0.26676	0.29	RANDOM	28.084

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]
-0.072		0.024	0.033		0.041

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.44
r_dihedral_angle_4_deg	19.221
r_dihedral_angle_3_deg	15.421
r_dihedral_angle_1_deg	6.271
r_angle_other_deg	3.793
r_scangle_it	3.324
r_mcangle_it	3.216
r_scbond_it	2.323
r_mcbond_it	2.057
r_angle_refined_deg	1.2
r_symmetry_vdw_other	0.26
r_metal_ion_refined	0.257
r_nbd_other	0.237
r_nbd_refined	0.193
r_nbtor_refined	0.179
r_xyhbond_nbd_refined	0.158
r_symmetry_vdw_refined	0.126
r_nbtor_other	0.109
r_symmetry_hbond_refined	0.09
r_chiral_restr	0.089
r_bond_refined_d	0.015
r_gen_planes_other	0.005
r_gen_planes_refined	0.004
r_bond_other_d
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1698
Nucleic Acid Atoms
Solvent Atoms	40
Heterogen Atoms	17

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ISAS	phasing