8S2F | pdb_00008s2f

Crystal structure of Borrelia burgdorferi paralogous family 12 outer surface protein BBH37

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	8CQN

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.6	294	0.1 M sodium citrate pH 5.6 20% PEG 4000 20% 2-propanol

Crystal Properties
Matthews coefficient	Solvent content
2.35	47.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 37.71	α = 90
b = 90.92	β = 90
c = 115.25	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	PIXEL	DECTRIS EIGER X 16M		2022-07-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	0.97625	MAX IV	BioMAX

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	2.7	90.92	100	0.132	0.999	13.4	12.5		11500

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	2.7	2.83	100		0.545	0.962	5.2	12.9

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.7	71.382	11450	596	99.948	0.226	0.2213	0.2241	0.3099	0.3088	45.645

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]
0.017			0.009		-0.026

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.619
r_dihedral_angle_3_deg	21.65
r_dihedral_angle_4_deg	19.429
r_lrange_it	9.029
r_lrange_other	9.029
r_scangle_it	6.504
r_scangle_other	6.503
r_dihedral_angle_1_deg	5.872
r_mcangle_other	5.06
r_mcangle_it	5.059
r_scbond_it	3.902
r_scbond_other	3.901
r_mcbond_it	3.186
r_mcbond_other	3.174
r_angle_other_deg	2.264
r_angle_refined_deg	1.457
r_nbd_other	0.275
r_symmetry_nbd_other	0.228
r_nbd_refined	0.219
r_symmetry_nbd_refined	0.188
r_nbtor_refined	0.161
r_symmetry_xyhbond_nbd_other	0.147
r_symmetry_xyhbond_nbd_refined	0.146
r_xyhbond_nbd_refined	0.142
r_chiral_restr	0.066
r_symmetry_nbtor_other	0.065
r_bond_other_d	0.034
r_bond_refined_d	0.012
r_gen_planes_refined	0.005
r_gen_planes_other	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2888
Nucleic Acid Atoms
Solvent Atoms	29
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing