8EKF

X-ray crystal structure of 311R Fab in complex with the PfCSP peptide NPNA-3

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		293	0.04 M KH2PO4, 20% Glycerol, and 16% PEG3000

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.412	α = 90
b = 70.765	β = 90
c = 170.246	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		2022-05-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL12-1	0.979	SSRL	BL12-1

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	1.9	44.27	99.8	0.055	0.99	17.2	3.3		44216

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.9	1.94	97.6		0.96		2.3

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6AXK	1.9	44.27	44095	2192	99.726	0.186	0.1839	0.2216	37.602

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]
1.15			-0.472		-0.678

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.624
r_dihedral_angle_4_deg	22.382
r_dihedral_angle_3_deg	14.817
r_lrange_it	7.86
r_lrange_other	7.828
r_dihedral_angle_1_deg	7.586
r_scangle_it	6.213
r_scangle_other	6.212
r_mcangle_other	4.821
r_mcangle_it	4.818
r_scbond_it	4.276
r_scbond_other	4.275
r_mcbond_it	3.584
r_mcbond_other	3.569
r_angle_refined_deg	1.718
r_angle_other_deg	1.408
r_nbd_refined	0.193
r_symmetry_nbd_other	0.188
r_symmetry_nbd_refined	0.188
r_nbd_other	0.173
r_nbtor_refined	0.169
r_xyhbond_nbd_refined	0.154
r_symmetry_xyhbond_nbd_refined	0.153
r_symmetry_nbtor_other	0.084
r_chiral_restr	0.078
r_bond_refined_d	0.012
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3323
Nucleic Acid Atoms
Solvent Atoms	174
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
Coot	model building
PHASER	phasing
Aimless	data reduction
pointless	data reduction