3CLT

Crystal structure of the R236E mutant of Methylophilus methylotrophus ETF

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1O97

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	6.2		limited digest with trypsin, 2.0 M sodium phosphate, pH 6.2, VAPOR DIFFUSION

Crystal Properties
Matthews coefficient	Solvent content
2.65	53.55

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 116.692	α = 90
b = 116.692	β = 90
c = 84.412	γ = 120

Symmetry
Space Group	P 61

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	ADSC QUANTUM 210		2005-04-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1		ESRF	ID14-1

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	2	20	99.9	0.062	11.2	4.5	41782	41782

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	1O97	2	19.91	41782	2209	99.95	0.15492	0.15326	0.18607	RANDOM	22.176

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]
0.16	0.08		0.16		-0.24

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.669
r_dihedral_angle_4_deg	18.238
r_dihedral_angle_3_deg	13.149
r_dihedral_angle_1_deg	6.15
r_scangle_it	2.199
r_scbond_it	1.409
r_angle_refined_deg	1.301
r_mcangle_it	0.889
r_angle_other_deg	0.797
r_mcbond_it	0.608
r_symmetry_vdw_other	0.219
r_nbd_refined	0.199
r_nbd_other	0.18
r_nbtor_refined	0.167
r_symmetry_hbond_refined	0.147
r_xyhbond_nbd_refined	0.133
r_mcbond_other	0.109
r_nbtor_other	0.081
r_chiral_restr	0.076
r_symmetry_vdw_refined	0.068
r_bond_refined_d	0.009
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4243
Nucleic Acid Atoms
Solvent Atoms	632
Heterogen Atoms	76

Software

Software
Software Name	Purpose
REFMAC	refinement
DNA	data collection
DENZO	data reduction
SCALEPACK	data scaling