6T8Y

NAD+-dependent fungal formate dehydrogenase from Chaetomium thermophilum: A complex with the reduced form of the cofactor NADH and the substrate formate at a secondary site.

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH		291	0.1 M Bis-Tris, pH 6.5, 20% w/v PEG 5000 MME, 2.5 mM NAD+

Crystal Properties
Matthews coefficient	Solvent content
2.45	49.78

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 50.568	α = 85.592
b = 94.756	β = 89.932
c = 94.604	γ = 81.614

Symmetry
Space Group	P 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	PIXEL	DECTRIS PILATUS3 6M		2018-02-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9763	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.26	47.06	87	0.999	7.6	1.7		407315			22.1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.26	1.28	48.1		0.215		1.5

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5dna	1.26	46.774	407312	20297	86.99	0.17	0.1692	0.1931	23.935

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]
0.088	0.304	-0.244	0.444	-0.21	-0.484

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.662
r_dihedral_angle_4_deg	13.685
r_dihedral_angle_3_deg	12.879
r_lrange_it	7.896
r_lrange_other	7.896
r_scangle_it	6.923
r_scangle_other	6.923
r_dihedral_angle_1_deg	6.611
r_scbond_it	5.637
r_scbond_other	5.636
r_mcangle_it	4.96
r_mcangle_other	4.956
r_mcbond_it	4.25
r_mcbond_other	4.25
r_angle_other_deg	2.297
r_angle_refined_deg	1.766
r_nbd_refined	0.215
r_symmetry_nbd_other	0.212
r_symmetry_xyhbond_nbd_refined	0.204
r_symmetry_nbd_refined	0.194
r_xyhbond_nbd_refined	0.177
r_nbd_other	0.173
r_nbtor_refined	0.165
r_symmetry_xyhbond_nbd_other	0.128
r_chiral_restr	0.094
r_ncsr_local_group_2	0.077
r_ncsr_local_group_6	0.073
r_ncsr_local_group_5	0.072
r_ncsr_local_group_4	0.071
r_symmetry_nbtor_other	0.07
r_ncsr_local_group_1	0.07
r_ncsr_local_group_3	0.065
r_bond_other_d	0.034
r_gen_planes_other	0.02
r_bond_refined_d	0.012
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11614
Nucleic Acid Atoms
Solvent Atoms	1893
Heterogen Atoms	261

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MoRDa	phasing