SAXSdb — 9y9j

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1. Structure Basics

entry_id	9y9j
deposition_date	2025-09-14
title	Two CAP-1 Bound to the Pointed End of Cofilin F-actin
keywords	Cytoskeleton, Actin, Filament, Helical, PROTEIN FIBRIL; PROTEIN FIBRIL
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	57.29 Å
rg_electron	58.18 Å
i0	1612690000.00
molecular_weight	339080.0 kDa
excluded_volume	425880 Å³
envelope_volume	615560 Å³
shell_volume	92966 Å³
envelope_diameter	232.3 Å
shell_rg	55.14 Å
envelope_rg	58.43 Å
shape_rg	58.20 Å
total_rg	58.04 Å
total_atoms	23804
n_residues	3003
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	206.3 Å
rg_real	57.78 Å
rg_real_error	2.06 Å
i0_real	1.6120e+09
i0_real_error	3.5240e+07
rg_reciprocal	56.84 Å
i0_reciprocal	1610000000.0000
total_estimate	0.8224
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	53.5 Å
skewness	0.623
kurtosis	0.031
angular_range	— – 0.1350 Å⁻¹
current_alpha	0.0014
highest_alpha	134900000.0000
n_real_points	28
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.701; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.868; Smooth: 0.716

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Actin, alpha skeletal muscle
formula_weight	41978.8 kDa
ec_number	3.6.4.-
src_method	nat
entity_count	5

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E
atom_count	23818

CDEDETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDEAGPSIVHRKCF

Entity 2 polymer

description	Adenylyl cyclase-associated protein 1
formula_weight	51968.3 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	W,X

MADMQNLVERLERAVGRLEAVSHTSDMHRGYADSPSKAGAAPYVQAFDSLLAGPVAEYLKISKEIGGDVQKHAEMVHTGLKLERALLVTASQCQQPAENKLSDLLAPISEQIKEVITFREKNRGSKLFNHLSAVSESIQALGWVAMAPKPGPYVKEMNDAAMFYTNRVLKEYKDVDKKHVDWVKAYLSIWTELQAYIKEFHTTGLAWSKTGPVAKELSGLPSGPSAGSCPPPPPPCPPPPPVSTISCSYESASRSSLFAQINQGESITHALKHVSDDMKTHKNPALKAQSGPVRSGPKPFSAPKPQTSPSPKRATKKEPAVLELEGKKWRVENQENVSNLVIEDTELKQVAYIYKCVNTTLQIKGKINSITVDNCKKLGLVFDDVVGIVEIINSKDVKVQVMGKVPTISINKTDGCHAYLSKNSLDCEIVSAKSSEMNVLIPTEGGDFNEFPVPEQFKTLWNGQKLVTTVTEIAG

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 3 polymer

description	Cofilin-2
formula_weight	18765.6 kDa
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	a,b,c,d,e

MASGVTVNDEVIKVFNDMKVRKSSTQEEIKKRKKAVLFCLSDDKRQIIVEEAKQILVGDIGDTVEDPYTSFVKLLPLNDCRYALYDATYETKESKKEDLVFIFWAPESAPLKSKMIYASSKDAIKKKFTGIKHEWQVNGLDDIKDRSTLGEKLGGNVVVSLEGKPL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 4 non-polymer

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

Entity 5 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	5

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6. Citations (1)

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resolution	3.580 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.58 Å
resolution_method	—
num_particles	55287

fit	/app/data/saxs_computation/y9/9y9j/9y9j.fit
pddf	/app/data/pr_computation/y9/9y9j/9y9j.pr.out
profile	/app/data/saxs_computation/y9/9y9j/9y9j.dat

Two CAP-1 Bound to the Pointed End of Cofilin F-actin

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Refinement

EM 3D

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

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)