7FI2 | pdb_00007fi2

Crystal structure of Multi-functional Polysaccharide lyase Smlt1473-H168A from Stenotrophomonas maltophilia (strain K279a) at pH-5.0

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5	298.15	0.2M LiSo4 Monohydrate, 0.1M Sodium acetate trihdyrate pH-5.0 25% (w/v) PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.62	53.03

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 75.564	α = 90
b = 75.564	β = 90
c = 112.36	γ = 120

Symmetry
Space Group	P 31 2 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	CMOS	BRUKER PHOTON 100		2018-12-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	BRUKER AXS MICROSTAR-H	1.5418

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	2.6	65.44	96.4	0.114	0.996	16.59	10.07		11515

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	2.6	2.7	78.3		0.3313	0.909		4.25

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	FREE R-VALUE	7FHU	2.6	65.309	11451	515	96.389	0.189	0.1873	0.2	0.2316	0.23	20.782

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]
-0.272	-0.136		-0.272		0.881

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.998
r_dihedral_angle_4_deg	21.006
r_dihedral_angle_3_deg	15.381
r_dihedral_angle_1_deg	6.399
r_lrange_it	4.441
r_lrange_other	4.424
r_scangle_other	2.74
r_scangle_it	2.735
r_mcangle_other	2.438
r_mcangle_it	2.43
r_scbond_it	1.653
r_scbond_other	1.646
r_angle_refined_deg	1.568
r_mcbond_it	1.471
r_mcbond_other	1.437
r_angle_other_deg	1.319
r_symmetry_nbd_refined	0.254
r_nbd_refined	0.212
r_nbd_other	0.192
r_symmetry_nbd_other	0.188
r_nbtor_refined	0.165
r_xyhbond_nbd_refined	0.147
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.075
r_symmetry_xyhbond_nbd_refined	0.053
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2402
Nucleic Acid Atoms
Solvent Atoms	80
Heterogen Atoms	31

Software

Software
Software Name	Purpose
REFMAC	refinement
PROTEUM PLUS	data reduction
PROTEUM PLUS	data scaling
PHASER	phasing