6AID | pdb_00006aid

Structural insights into the unique polylactate degrading mechanism of Thermobifida alba cutinase

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	15-20% (w/v) PEG 3350, 0.2 M sodium acetate, 0.2M2 M calcium chloride, and 0.1 M sodium chloride, pH 8.0

Crystal Properties
Matthews coefficient	Solvent content
1.89	34.91

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 42.265	α = 90
b = 68.86	β = 90
c = 78.594	γ = 90

Symmetry
Space Group	P 21 21 21

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	RAYONIX MX300HE		2015-12-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL44XU	0.9	SPring-8	BL44XU

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.3	50	97.6	0.121	0.996	7.41	3.5		106239			17.5

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	1.3	1.38	86.7		0.37	0.91	1.89

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	MIR	THROUGHOUT	1.3	50	53071	2790	97.88	0.13451	0.1329	0.16	0.16465	0.18	RANDOM	12.258

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]
0.23			-0.15		-0.08

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.259
r_dihedral_angle_4_deg	18.881
r_sphericity_free	16.969
r_dihedral_angle_3_deg	9.808
r_dihedral_angle_1_deg	6.51
r_rigid_bond_restr	6.02
r_sphericity_bonded	4.767
r_angle_refined_deg	2.443
r_long_range_B_other	2.32
r_long_range_B_refined	2.318
r_scangle_other	2.249
r_scbond_other	1.971
r_scbond_it	1.967
r_angle_other_deg	1.251
r_mcangle_it	1.215
r_mcangle_other	1.215
r_mcbond_it	0.952
r_mcbond_other	0.951
r_chiral_restr	0.167
r_bond_refined_d	0.03
r_gen_planes_refined	0.016
r_bond_other_d	0.003
r_gen_planes_other	0.002
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	2009
Nucleic Acid Atoms
Solvent Atoms	222
Heterogen Atoms	19

Software

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