SAXSdb — 9pwb

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1. Structure Basics

entry_id	9pwb
deposition_date	2025-08-04
title	Structure of AP-2 bound to the dileucine motif of CCDC32; combined map
keywords	Clathin, AP-2 adaptor complex, CCDC32, assembly chaperone, ENDOCYTOSIS; ENDOCYTOSIS
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	38.99 Å
rg_electron	38.16 Å
i0	387571000.00
molecular_weight	165260.0 kDa
excluded_volume	209200 Å³
envelope_volume	281720 Å³
shell_volume	60406 Å³
envelope_diameter	123.9 Å
shell_rg	45.54 Å
envelope_rg	37.00 Å
shape_rg	38.13 Å
total_rg	38.70 Å
total_atoms	11620
n_residues	1457
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	119.0 Å
rg_real	38.73 Å
rg_real_error	0.61 Å
i0_real	3.8760e+08
i0_real_error	6.3840e+06
rg_reciprocal	38.89 Å
i0_reciprocal	387600000.0000
total_estimate	0.9085
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	52.3 Å
skewness	0.052
kurtosis	-0.680
angular_range	— – 0.2050 Å⁻¹
current_alpha	0.0001
highest_alpha	96520000.0000
n_real_points	42
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.959; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.937

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	AP-2 complex subunit alpha-2
formula_weight	68855.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	11620

GMRGLAVFISDIRNCKSKEAEIKRINKELANIRSKFKGDKALDGYSKKKYVCKLLFIFLLGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTFMGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGDWTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDYTYYFVPAPWLSVKLLRLLQCYPPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLVRACNQLGQFLQHRETNLRYLALESMCTLASSEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGDYVSEEVWYRVIQIVINRDDVQGYAAKTVFEALQAPACHENLVKVGGYILGEFGNLIAGDPRSSPLIQFNLLHSKFHLCSVPTRALLLSTYIKFVNLFPEVKATIQDVLRSDSQLKNADVELQQRAVEYLRLSTVASTDILATVLEEMPPFPERESSILAKLKKKKG

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

Entity 2 polymer

description	AP-2 complex subunit beta
formula_weight	63009.8 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

KKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLLDELICHIGSLASVYHKPPNAFV

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

Entity 3 polymer

description	Coiled-coil domain-containing protein 32
formula_weight	1259.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

STEEVQFLIPP

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

Entity 4 polymer

description	AP-2 complex subunit mu
formula_weight	15518.8 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	M

MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQ

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

Entity 5 polymer

description	AP-2 complex subunit sigma
formula_weight	16909.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	S

MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLLMLQSL

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

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6. Citations (1)

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resolution	2.640 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.64 Å
resolution_method	—
num_particles	503371

fit	/app/data/saxs_computation/pw/9pwb/9pwb.fit
pddf	/app/data/pr_computation/pw/9pwb/9pwb.pr.out
profile	/app/data/saxs_computation/pw/9pwb/9pwb.dat

Structure of AP-2 bound to the dileucine motif of CCDC32; combined map

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

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)