← Back to search

9ydz

Cryo EM structure of KCa3.1_R355K_II/calmodulin channel in complex with rimtuzalcap

Method: ELECTRON MICROSCOPY D_max: 129.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9ydz
deposition_date	2025-09-23
title	Cryo EM structure of KCa3.1_R355K_II/calmodulin channel in complex with rimtuzalcap
keywords	Ion channel, Intermediate conductance calcium-activated potassium channel, Calmodulin binding protein, TRANSPORT PROTEIN; TRANSPORT PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	43.40 Å
rg_electron	42.06 Å
i0	425564000.00
molecular_weight	173570.0 kDa
excluded_volume	219720 Å³
envelope_volume	346850 Å³
shell_volume	68582 Å³
envelope_diameter	129.0 Å
shell_rg	47.90 Å
envelope_rg	40.80 Å
shape_rg	42.14 Å
total_rg	42.12 Å
total_atoms	12219
n_residues	1628
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

▼

3. P(r) Analysis (GNOM)

dmax	129.2 Å
rg_real	43.12 Å
rg_real_error	0.73 Å
i0_real	4.2560e+08
i0_real_error	6.5400e+06
rg_reciprocal	43.40 Å
i0_reciprocal	425700000.0000
total_estimate	0.8799
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	57.4 Å
skewness	0.038
kurtosis	-0.484
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	33920000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.929; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.966; Smooth: 0.682

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	Intermediate conductance calcium-activated potassium channel protein 4
formula_weight	40219.9 kDa
mutation	R355K
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	12219

LGALRRRKRLLEQEKSLAGWALVLAGTGIGLMVLHAEMLWFGGCSWALYLFLVKCTISISTFLLLCLIVAFHAKEVQLFMTDNGLRDWRVALTGRQAAQIVLELVVCGLHPAPVRGPPCVQDLGAPLTSPQPWPGFLGQGEALLSLAMLLRLYLVPRAVLLRSGVLLNASYRSIGALNQVRFRHWFVAKLYMNTHPGRLLLGLTLGLWLTTAWVLSVAERQAVNATGHLSDTLWLIPITFLTIGYGDVVPGTMWGKIVCLCTGVMGVCCTALLVAVVARKLEFNKAEKHVHNFMMDIQYTKEMKESAARVLQEAWMFYKHTRRKESHAARRHQRKLLAAINAFRQVKLKHRKLREQVN

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Calmodulin-1
formula_weight	7695.4 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	E,F,G,H

SEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTA

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 non-polymer

description	POTASSIUM ION
formula_weight	39.1 kDa
src_method	syn
entity_count	4

▶

6. Citations (1)

▶

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	3.400 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.40 Å
resolution_method	—
num_particles	80295

fit	/app/data/saxs_computation/yd/9ydz/9ydz.fit
pddf	/app/data/pr_computation/yd/9ydz/9ydz.pr.out
profile	/app/data/saxs_computation/yd/9ydz/9ydz.dat

Cryo EM structure of KCa3.1_R355K_II/calmodulin channel in complex with rimtuzalcap

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)