7FHV | pdb_00007fhv

Crystal structure of Multi-functional Polysaccharide lyase Smlt1473 (WT) from Stenotrophomonas maltophilia (strain K279a) in apo form at pH 6.5

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	6.5	298.15	0.2M LiSo4 monohydrate, 0.1M Sodium Cacodylate pH 6.5, 30% (w/v) PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.32

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 44.513	α = 71.326
b = 58.213	β = 89.938
c = 67.543	γ = 74.862

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		2019-11-26	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	2.28	53.02	92.3	0.082	0.992	9.17	2.52		26004

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	2.28	2.38	88.2		0.3383	0.753	2.16	1.05

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	2.28	53.006	25977	1304	92.209	0.199	0.1962	0.2	0.2451	0.25	17.556

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]
0.849	-0.663	0.152	0.007	-0.203	-1.113

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.207
r_dihedral_angle_4_deg	15.156
r_dihedral_angle_3_deg	12.733
r_dihedral_angle_1_deg	5.853
r_lrange_it	3.394
r_lrange_other	3.279
r_scangle_it	2.049
r_scangle_other	2.024
r_mcangle_it	1.731
r_mcangle_other	1.731
r_angle_refined_deg	1.429
r_angle_other_deg	1.294
r_scbond_it	1.268
r_scbond_other	1.24
r_mcbond_it	1.071
r_mcbond_other	1.069
r_symmetry_xyhbond_nbd_other	0.264
r_symmetry_nbd_refined	0.235
r_nbd_refined	0.204
r_symmetry_nbd_other	0.188
r_nbd_other	0.187
r_nbtor_refined	0.157
r_xyhbond_nbd_refined	0.152
r_symmetry_xyhbond_nbd_refined	0.109
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.069
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4809
Nucleic Acid Atoms
Solvent Atoms	299
Heterogen Atoms	37

Software

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