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9qfd

Cryo-EM structure of the fully cofilin-1-decorated actin filament (cofilactin)

Method: ELECTRON MICROSCOPY D_max: 207.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qfd
deposition_date	2025-03-11
title	Cryo-EM structure of the fully cofilin-1-decorated actin filament (cofilactin)
keywords	actin, cofilin, filament, cytoskeleton, STRUCTURAL PROTEIN; STRUCTURAL 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	63.26 Å
rg_electron	64.53 Å
i0	2362670000.00
molecular_weight	411540.0 kDa
excluded_volume	516450 Å³
envelope_volume	722980 Å³
shell_volume	100240 Å³
envelope_diameter	247.4 Å
shell_rg	57.72 Å
envelope_rg	64.38 Å
shape_rg	64.52 Å
total_rg	64.39 Å
total_atoms	28854
n_residues	3661
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	207.1 Å
rg_real	63.76 Å
rg_real_error	1.70 Å
i0_real	2.3570e+09
i0_real_error	4.8850e+07
rg_reciprocal	62.41 Å
i0_reciprocal	2355000000.0000
total_estimate	0.8177
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	58.0 Å
skewness	0.605
kurtosis	-0.223
angular_range	— – 0.1250 Å⁻¹
current_alpha	0.0083
highest_alpha	176700000.0000
n_real_points	26
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.805; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.972; Smooth: 0.239

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Actin, cytoplasmic 1, N-terminally processed
formula_weight	41632.4 kDa
mutation	C272A
src_method	man
entity_count	7

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E,F,G
atom_count	28854

DDDIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESAGIHETTFNSIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQEYDESGPSIVHRKCF

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Trichoplusia ni

Entity 2 polymer

description	Cofilin-1
formula_weight	18532.5 kDa
src_method	man
entity_count	7

Polymer

type	polypeptide(L)
strand_id	H,I,J,K,L,M,N

MASGVAVSDGVIKVFNDMKVRKSSTPEEVKKRKKAVLFCLSEDKKNIILEEGKEILVGDVGQTVDDPYATFVKMLPDKDCRYALYDATYETKESKKEDLVFIFWAPESAPLKSKMIYASSKDAIKKKLTGIKHELQANCYEEVKDRCTLAEKLGGSAVISLEGKPL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21(DE3)

Entity 3 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	7

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	7

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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	2.61 Å
resolution_method	—
num_particles	798636

fit	/app/data/saxs_computation/qf/9qfd/9qfd.fit
pddf	/app/data/pr_computation/qf/9qfd/9qfd.pr.out
profile	/app/data/saxs_computation/qf/9qfd/9qfd.dat

Cryo-EM structure of the fully cofilin-1-decorated actin filament (cofilactin)

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 (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)