8S2P | pdb_00008s2p

Crystal structure of Borrelia burgdorferi paralogous family 12 outer surface protein BBH37 (space group p21)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	8S2F

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		294	0.01 M MnCl2 0.1 M sodium citrate pH 5.6 2.5 M 1,6-hexanediol

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 30.09	α = 90
b = 75.57	β = 89.99
c = 113.16	γ = 90

Symmetry
Space Group	P 1 21 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	PIXEL	DECTRIS EIGER2 XE 16M		2023-08-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.91840	Diamond	I03

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	62.924	73.5	0.072	0.997	5.4	1.9		18923

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	2.32			0.368	0.659	2.3

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	2.2	62.924	18917	946	73.123	0.251	0.2478	0.2507	0.3096	0.3176	34.761

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]
-0.009		-0.022	-0.006		0.015

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.564
r_dihedral_angle_3_deg	20.714
r_dihedral_angle_4_deg	18.018
r_lrange_it	7.027
r_lrange_other	7.026
r_dihedral_angle_1_deg	6.128
r_scangle_it	5.422
r_scangle_other	5.422
r_mcangle_it	4.047
r_mcangle_other	4.047
r_scbond_it	3.606
r_scbond_other	3.603
r_mcbond_it	2.857
r_mcbond_other	2.853
r_angle_other_deg	2.289
r_angle_refined_deg	1.686
r_nbd_other	0.268
r_symmetry_xyhbond_nbd_refined	0.265
r_symmetry_nbd_other	0.227
r_nbd_refined	0.225
r_nbtor_refined	0.167
r_xyhbond_nbd_other	0.166
r_symmetry_nbd_refined	0.161
r_xyhbond_nbd_refined	0.125
r_chiral_restr	0.088
r_symmetry_nbtor_other	0.068
r_symmetry_xyhbond_nbd_other	0.047
r_bond_other_d	0.034
r_bond_refined_d	0.015
r_gen_planes_refined	0.007
r_gen_planes_other	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3008
Nucleic Acid Atoms
Solvent Atoms	26
Heterogen Atoms

Software

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