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9u4e

Cryo-EM structure of the human CRP-CPS23F complex

Method: ELECTRON MICROSCOPY D_max: 112.0 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9u4e
deposition_date	2025-03-19
title	Cryo-EM structure of the human CRP-CPS23F complex
keywords	complex, pentamer, anti-bacterial immunity, IMMUNE SYSTEM; IMMUNE SYSTEM
method	ELECTRON MICROSCOPY

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	37.33 Å
rg_electron	36.30 Å
i0	200394000.00
molecular_weight	119450.0 kDa
excluded_volume	151120 Å³
envelope_volume	204700 Å³
shell_volume	45535 Å³
envelope_diameter	107.6 Å
shell_rg	44.55 Å
envelope_rg	35.07 Å
shape_rg	36.29 Å
total_rg	36.91 Å
total_atoms	16615
n_residues	1030
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	112.0 Å
rg_real	37.13 Å
rg_real_error	0.79 Å
i0_real	2.0040e+08
i0_real_error	3.3070e+06
rg_reciprocal	37.26 Å
i0_reciprocal	200400000.0000
total_estimate	0.9085
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	56.0 Å
skewness	-0.012
kurtosis	-0.825
angular_range	— – 0.2100 Å⁻¹
current_alpha	0.0000
highest_alpha	106400000.0000
n_real_points	43
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.945; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.972

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	C-reactive protein
formula_weight	25061.5 kDa
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E
atom_count	16615

MEKLLCFLVLTSLSHAFGQTDMSRKAFVFPKESDTSYVSLKAPLTKPLKAFTVCLHFYTELSSTRGYSIFSYATKRQDNEILIFWSKDIGYSFTVGGSEILFEVPEVTVAPVHICTSWESASGIVEFWVDGKPRVRKSLKKGYTVGAEASIILGQEQDSFGGNFEGSQSLVGDIGNVNMWDFVLSPDEINTIYLGGPFSPNVLNWRALKYEVQGEVFTKPQLWP

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 branched

description	;alpha-L-rhamnopyranose-(1-2)-1,3-bis(oxidanyl)propan-2-yl [(2~{R},3~{S},4~{S},5~{R})-2-(hydroxymethyl)-3,5,6-tris(oxidanyl)oxan-4-yl] hydrogen phosphate-(1-4)-beta-L-rhamnopyranose-(1-4)-beta-D-glucopyranose ;
formula_weight	788.6 kDa
src_method	syn
entity_count	5

Entity 3 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	10

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.780 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.78 Å
resolution_method	—
num_particles	207101

fit	/app/data/saxs_computation/u4/9u4e/9u4e.fit
pddf	/app/data/pr_computation/u4/9u4e/9u4e.pr.out
profile	/app/data/saxs_computation/u4/9u4e/9u4e.dat

Cryo-EM structure of the human CRP-CPS23F complex

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

EM 3D