7Y51 | pdb_00007y51

Acetylxylan esterase from Caldanaerobacter subterraneus subsp. tengcongensis TTE0866 delta100 mutant

X-RAY DIFFRACTION

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Serial Crystallography (SX)

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7FBW

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	EVAPORATION, RECRYSTALLIZATION	8	293	20 mM Tris-HCl (pH8.0) 100 mM NaCl

Crystal Properties
Matthews coefficient	Solvent content
4.3	71.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 63.09	α = 90
b = 106.4	β = 90
c = 117.78	γ = 90

Symmetry
Space Group	I 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	PIXEL	DECTRIS PILATUS3 6M		2021-10-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL45XU	1.0	SPring-8	BL45XU

Serial Crystallography

Sample delivery method
Diffraction ID	Description	Sample Delivery Method
1		fixed target

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	2.45	39.91	99.9	0.17	0.993	14.3	11		14957

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.45	2.55			0.912	0.84

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	7FBW	2.45	39.91	14956	722	99.906	0.193	0.1907	0.2	0.2301	0.23	38.227

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]
0.066			-0.036		-0.03

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.021
r_dihedral_angle_3_deg	21.027
r_dihedral_angle_4_deg	18.244
r_lrange_it	9.89
r_lrange_other	9.89
r_scangle_it	7.727
r_scangle_other	7.724
r_dihedral_angle_1_deg	7.524
r_mcangle_other	6.521
r_mcangle_it	6.507
r_scbond_it	4.99
r_scbond_other	4.987
r_mcbond_it	4.284
r_mcbond_other	4.212
r_angle_refined_deg	1.868
r_angle_other_deg	1.344
r_nbd_refined	0.204
r_symmetry_nbd_other	0.181
r_nbtor_refined	0.173
r_xyhbond_nbd_refined	0.164
r_nbd_other	0.106
r_chiral_restr	0.105
r_symmetry_nbtor_other	0.085
r_symmetry_nbd_refined	0.085
r_bond_refined_d	0.012
r_symmetry_xyhbond_nbd_refined	0.012
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1488
Nucleic Acid Atoms
Solvent Atoms	34
Heterogen Atoms	7

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing