7FHY | pdb_00007fhy

Crystal structure of Multi-functional Polysaccharide lyase Smlt1473 (WT) from Stenotrophomonas maltophilia (strain K279a) in apo form at pH 7.0

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	7	298.15	0.2M LiSO4 Monohydrdate, 100mM Sodium Cacodylate, pH-7.0, 30% (w/v) PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.38

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 43.652	α = 71.144
b = 57.943	β = 89.711
c = 67.569	γ = 73.787

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	CMOS	BRUKER PHOTON 100		2019-07-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	BRUKER AXS MICROSTAR-H	1.54178

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	2.2	29.09	98.7	0.1422	0.991	9.33	5.24		30028

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	2.2	2.3	97		0.4453	0.74	2.94	3.24

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	2.2	29.052	29907	1489	98.336	0.223	0.2208	0.23	0.2577	0.27	24.383

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]
2.658	-0.897	0.242	0.121	0.123	-2.566

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.657
r_dihedral_angle_4_deg	16.923
r_dihedral_angle_3_deg	13.695
r_dihedral_angle_1_deg	6.23
r_lrange_it	5.553
r_lrange_other	5.534
r_scangle_it	3.528
r_scangle_other	3.527
r_mcangle_other	3.198
r_mcangle_it	3.196
r_scbond_it	2.224
r_scbond_other	2.217
r_mcbond_it	2.029
r_mcbond_other	2.024
r_angle_refined_deg	1.568
r_angle_other_deg	1.332
r_symmetry_xyhbond_nbd_refined	0.282
r_symmetry_nbd_refined	0.252
r_nbd_other	0.218
r_nbd_refined	0.216
r_symmetry_nbd_other	0.188
r_xyhbond_nbd_refined	0.169
r_nbtor_refined	0.165
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.07
r_bond_refined_d	0.009
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	4777
Nucleic Acid Atoms
Solvent Atoms	171
Heterogen Atoms	20

Software

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