SAXSdb — 9qgk

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1. Structure Basics

entry_id	9qgk
deposition_date	2025-03-13
title	F-actin decorated by ITPKA
keywords	actin, CYTOSOLIC PROTEIN; CYTOSOLIC 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	46.98 Å
rg_electron	47.50 Å
i0	745393000.00
molecular_weight	223250.0 kDa
excluded_volume	278430 Å³
envelope_volume	363460 Å³
shell_volume	67139 Å³
envelope_diameter	189.9 Å
shell_rg	47.78 Å
envelope_rg	47.79 Å
shape_rg	47.51 Å
total_rg	47.48 Å
total_atoms	30895
n_residues	1977
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	177.3 Å
rg_real	47.51 Å
rg_real_error	2.40 Å
i0_real	7.4540e+08
i0_real_error	1.4860e+07
rg_reciprocal	46.98 Å
i0_reciprocal	744900000.0000
total_estimate	0.5815
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	46.9 Å
skewness	0.619
kurtosis	-0.074
angular_range	— – 0.1700 Å⁻¹
current_alpha	0.0000
highest_alpha	96260000.0000
n_real_points	35
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.558; Stabil: 1.000; Sysdev: 0.021; Positv: 1.000; Valcen: 0.882; Smooth: 0.935

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Inositol-trisphosphate 3-kinase A
formula_weight	51083.8 kDa
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E
atom_count	30895

MTLPGGPTGMARPGGARPCSPGLERAPRRSVGELRLLFEARCAAVAAAAAAGEPRARGAKRRGGQVPNGLPRAPPAPVIPQLTVTAEEPDVPPTSPGPPERERDCLPAAGSSHLQQPRRLSTSSVSSTGSSSLLEDSEDDLLSDSESRSRGNVQLEAGEDVGQKNHWQKIRTMVNLPVISPFKKRYAWVQLAGHTGSFKAAGTSGLILKRCSEPERYCLARLMADALRGCVPAFHGVVERDGESYLQLQDLLDGFDGPCVLDCKMGVRTYLEEELTKARERPKLRKDMYKKMLAVDPEAPTEEEHAQRAVTKPRYMQWREGISSSTTLGFRIEGIKKADGSCSTDFKTTRSREQVLRVFEEFVQGDEEVLRRYLNRLQQIRDTLEVSEFFRRHEVIGSSLLFVHDHCHRAGVWLIDFGKTTPLPDGQILDHRRPWEEGNREDGYLLGLDNLIGILASLAER

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	;Escherichia coli 'BL21-Gold(DE3)pLysS AG' ;

Entity 2 polymer

description	Actin, alpha skeletal muscle
formula_weight	42110.0 kDa
ec_number	3.6.4.-
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	F,G,H,I,J

MCDEDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDEAGPSIVHRKCF

Source

organism	Gallus
ncbi_taxonomy_id	9030
host_organism	Gallus

Entity 3 polymer

description	Phalloidin
formula_weight	808.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	X,Y,Z

PAWXATC

Source

organism	Amanita phalloides
ncbi_taxonomy_id	67723
host_organism	Amanita phalloides

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	5

Entity 5 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	5

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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	triclinic

resolution	2.97 Å
resolution_method	—
num_particles	65917

fit	/app/data/saxs_computation/qg/9qgk/9qgk.fit
pddf	/app/data/pr_computation/qg/9qgk/9qgk.pr.out
profile	/app/data/saxs_computation/qg/9qgk/9qgk.dat

F-actin decorated by ITPKA

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

EM 3D

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)