SAXSdb — 12dk

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1. Structure Basics

entry_id	12dk
deposition_date	2026-03-28
title	structure of human KCNQ1-CaM-PIP2 intermediate state
keywords	KCNQ1, intermediate state, PIP2, MEMBRANE PROTEIN; MEMBRANE PROTEIN
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	40.78 Å
rg_electron	40.13 Å
i0	677182000.00
molecular_weight	219790.0 kDa
excluded_volume	277560 Å³
envelope_volume	393550 Å³
shell_volume	77753 Å³
envelope_diameter	129.1 Å
shell_rg	49.19 Å
envelope_rg	39.39 Å
shape_rg	40.11 Å
total_rg	40.68 Å
total_atoms	15464
n_residues	1924
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	124.5 Å
rg_real	40.52 Å
rg_real_error	0.52 Å
i0_real	6.7720e+08
i0_real_error	9.1660e+06
rg_reciprocal	40.78 Å
i0_reciprocal	677400000.0000
total_estimate	0.8931
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	51.1 Å
skewness	0.036
kurtosis	-0.508
angular_range	— – 0.1950 Å⁻¹
current_alpha	0.0000
highest_alpha	58680000.0000
n_real_points	40
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.904; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.960; Smooth: 0.934

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Potassium voltage-gated channel subfamily KQT member 1
formula_weight	61945.1 kDa
mutation	I145C, E160R, R231E
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,C,E,G
atom_count	15464

ASDLGPRPPVSLDPRVSIYSTRRPVLARTHVQGRVYNFLERPTGWKCFVYHFAVFLIVLVCLIFSVLSTCEQYAALATGTLFWMRIVLVVFFGTEYVVRLWSAGCRSKYVGLWGRLRFARKPISIIDLIVVVASMVVLCVGSKGQVFATSAIRGIEFLQILRMLHVDRQGGTWRLLGSVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDAVNESGRVEFGSYADALWWGVVTVTTIGYGDKVPQTWVGKTIASCFSVFAISFFALPAGILGSGFALKVQQKQRQKHFNRQIPAAASLIQTAWRCYAAENPDSSTWKIYIRKAPRSHTLLSPSPKPKKSVVVKKKKFKLDKDNGVTPGEKMLTVPHITCDPPEERRLDHFSVDGYDSSVRKSPTLLEVSMPHFMRTNSFAEDLDLEGETLLTPITHISQLREHHRATIKVIRRMQYFVAKKKFQQARKPYDVRDVIEQYSQGHLNLMVRIKELQRRLDQSIGKPSLFISVSEKSKDRGSNTIGARLNRVEDKVTQLDQRLALITDMLHQLLSLH

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Calmodulin-1
formula_weight	16852.5 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	B,D,F,H

MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 non-polymer

description	;[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate ;
formula_weight	1047.1 kDa
src_method	syn
entity_count	4

Entity 4 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	8

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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	3.470 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.47 Å
resolution_method	—
num_particles	161967

fit	/app/data/saxs_computation/2d/12dk/12dk.fit
pddf	/app/data/pr_computation/2d/12dk/12dk.pr.out
profile	/app/data/saxs_computation/2d/12dk/12dk.dat

structure of human KCNQ1-CaM-PIP2 intermediate state

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 (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)