SAXSdb — 9pxb

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1. Structure Basics

entry_id	9pxb
deposition_date	2025-08-05
title	Hamster Scap/Insig-2 complex with cholesterol and bound Fab4G10
keywords	Complex, sterol-binding, COPII-binding, 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	42.35 Å
rg_electron	42.24 Å
i0	157100000.00
molecular_weight	108080.0 kDa
excluded_volume	137840 Å³
envelope_volume	193380 Å³
shell_volume	41152 Å³
envelope_diameter	146.2 Å
shell_rg	43.31 Å
envelope_rg	41.57 Å
shape_rg	42.17 Å
total_rg	42.53 Å
total_atoms	7638
n_residues	950
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	143.9 Å
rg_real	42.67 Å
rg_real_error	1.69 Å
i0_real	1.5710e+08
i0_real_error	2.9300e+06
rg_reciprocal	42.36 Å
i0_reciprocal	157000000.0000
total_estimate	0.8332
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	35.0 Å
skewness	0.413
kurtosis	-0.656
angular_range	— – 0.1850 Å⁻¹
current_alpha	0.0000
highest_alpha	17040000.0000
n_real_points	38
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.767; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.722; Smooth: 0.805

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Sterol regulatory element-binding protein cleavage-activating protein
formula_weight	89014.7 kDa
mutation	V133A, T140V, H244D, A245S, K246R, A253S, M256K
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	7638

MDYKDDDDKGSDYKDDDDKGSDYKDDDDKENLYFQGTGHHHHHHHHTLTERLREKISQAFYNHGLLCASYPIPIILFTGLCILACCYPLLKLPLPGTGPVEFSTPVKDYSPPPVDSDHKQGEPSEQPEWYVGAPVAYIQQIFVKSSVSPWHKNLLAVDVFRLPLSRAFQLVEEIRNHALRDSSGVKSLEEVCLQVTDLLPGLRKLRNLLPEHGCLLLSPGNFWQNDWERFHADPDIIGTIHQHEPKTLQTSATLKDLLFGVPGKYSGVSLYTRKRTVSYTITLVFQRYDSRFLSSLRSRLKLLHPSPNCSLRAENLVHVHFKEEIGIAELIPLVTTYIILFAYIYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSSESWSIMKNVATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMFFFTTVLSIDIRRMELADLNKRLPPESCLPSAKPVGRPARYERQLAVRPAMPHTITLQPSSFRNLRLPKRLRVIYFLARTRLAQRLIMAGTVVWIGILVYTDPAGLRTYLAAQVTEQSPLGEGSLGPMPVPSGVLPASRPDPAFSIFPPDAPKLPENQTVPGELPEHAAPAEGVHDSRAPEVTWGPEDEELWRRLSFRHWPTLFNYYNITLAKRYISLLPVIPVTLRLNPQEALEGRQPQDGRSAWAPPESLPAGLWEAGPKGPGGTQAHGDITLYKVAALGLAAGIVLVLLLLCLYRVLCPRNYGQPGGGAGRRRRGE

Source

organism	Cricetulus griseus
common_name	Chinese hamster
ncbi_taxonomy_id	10029
host_organism	Homo sapiens

Entity 2 polymer

description	Insulin-induced gene protein
formula_weight	24929.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MAEGKTESPGPKRRGPYISSVTSQSVNVVIRGVVLFFIGVFLALVLNLLQIQRNVTLFPPDVVTSIFSSAWWVPPCCGTASAVIGLLYPCIDRHLGEPHKFKREWSSVMRCVAVFVGINHASAKVDFDNNFQFSLTLAALSVGLWWTFDRSRSGFGLGVGIAFLATVVTQLLVYNGVYQYTSPDFLYVRSWLPCIFFAGGITMGNIGRQLAMYECKVIPEKSHQE

Source

organism	Cricetulus griseus
common_name	Chinese hamster
ncbi_taxonomy_id	10029
host_organism	Homo sapiens

Entity 3 polymer

description	Fab4G10 heavy chain
formula_weight	27016.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

TGVHSEVQLQQSGAELVRPGASVKLSCTASGFKIKDDYIHWVKQRPEQGLEWIGRIDPANGHTRYAPKFQDKATITADTSSNTAYLQLSSLTSEDTAVYYCTRYNDYDAFYFDYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTGSGATNFSLLKQAGDVEENPG

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 4 polymer

description	Fab4G10 light chain
formula_weight	25545.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

TGVHSDIQMTQTTSSLSASLGDRVTISCRASQDIRNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQTNTLPWTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGECHHHHHHHHHH

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 5 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	1

Entity 6 non-polymer

description	CHOLESTEROL
formula_weight	386.7 kDa
src_method	syn
entity_count	3

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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	3.20 Å
resolution_method	—
num_particles	160849

fit	/app/data/saxs_computation/px/9pxb/9pxb.fit
pddf	/app/data/pr_computation/px/9pxb/9pxb.pr.out
profile	/app/data/saxs_computation/px/9pxb/9pxb.dat

Hamster Scap/Insig-2 complex with cholesterol and bound Fab4G10

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 (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 branched

Entity 6 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)