7DS7

The Crystal Structure of Leaf-branch compost cutinase from Biortus.

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.6M imidazole, 0.1M tri-sodium citrate PH7.8

Crystal Properties
Matthews coefficient	Solvent content
2.04	39.62

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 109.412	α = 90
b = 109.412	β = 90
c = 35.137	γ = 120

Symmetry
Space Group	P 63

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 944+		2020-11-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-E SUPERBRIGHT	1.54178

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	2.15	47.38	98.1	0.101	22.1	11		13146

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	2.15	2.22			0.262

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	6tht	2.15	47.38	13144	678	98.082	0.183	0.1803	0.2273	9.937

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]
-0.15	-0.075		-0.15		0.485

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	26.642
r_dihedral_angle_4_deg	12.029
r_dihedral_angle_3_deg	10.403
r_dihedral_angle_1_deg	6.508
r_lrange_it	1.664
r_lrange_other	1.664
r_angle_refined_deg	1.2
r_angle_other_deg	1.125
r_mcangle_it	0.373
r_mcangle_other	0.373
r_scangle_it	0.293
r_scangle_other	0.293
r_mcbond_it	0.202
r_mcbond_other	0.201
r_nbd_other	0.184
r_nbd_refined	0.183
r_symmetry_nbd_other	0.167
r_scbond_it	0.161
r_nbtor_refined	0.15
r_scbond_other	0.149
r_xyhbond_nbd_refined	0.123
r_symmetry_xyhbond_nbd_refined	0.098
r_symmetry_nbd_refined	0.084
r_symmetry_nbtor_other	0.072
r_chiral_restr	0.043
r_gen_planes_refined	0.003
r_bond_refined_d	0.002
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1948
Nucleic Acid Atoms
Solvent Atoms	114
Heterogen Atoms	24

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing