SAXSdb — 9py7

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1. Structure Basics

entry_id	9py7
deposition_date	2025-08-07
title	Hamster Scap L1-L7 domain/Fab4G10 focused map
keywords	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	28.17 Å
rg_electron	27.33 Å
i0	62133800.00
molecular_weight	61482.0 kDa
excluded_volume	76924 Å³
envelope_volume	97308 Å³
shell_volume	30009 Å³
envelope_diameter	102.9 Å
shell_rg	34.27 Å
envelope_rg	27.74 Å
shape_rg	27.29 Å
total_rg	28.20 Å
total_atoms	4348
n_residues	537
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	97.9 Å
rg_real	28.19 Å
rg_real_error	0.75 Å
i0_real	6.2130e+07
i0_real_error	9.5270e+05
rg_reciprocal	28.18 Å
i0_reciprocal	62130000.0000
total_estimate	0.5911
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	31.5 Å
skewness	0.339
kurtosis	-0.419
angular_range	— – 0.2800 Å⁻¹
current_alpha	0.0000
highest_alpha	13940000.0000
n_real_points	57
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.807; Stabil: 1.000; Sysdev: 0.109; Positv: 1.000; Valcen: 0.930; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Fab4G10 heavy chain
formula_weight	27016.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H
atom_count	4348

TGVHSEVQLQQSGAELVRPGASVKLSCTASGFKIKDDYIHWVKQRPEQGLEWIGRIDPANGHTRYAPKFQDKATITADTSSNTAYLQLSSLTSEDTAVYYCTRYNDYDAFYFDYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTGSGATNFSLLKQAGDVEENPG

Source

organism	Mus musculus
common_name	mouse
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 2 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
common_name	mouse
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 3 polymer

description	Sterol regulatory element-binding protein cleavage-activating protein
formula_weight	144056.6 kDa
mutation	V133A, T140V, H244D, A245S, K246R, A253S, M256K
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

MHHHHHHHHTLTERLREKISQAFYNHGLLCASYPIPIILFTGLCILACCYPLLKLPLPGTGPVEFSTPVKDYSPPPVDSDHKQGEPSEQPEWYVGAPVAYIQQIFVKSSVSPWHKNLLAVDVFRLPLSRAFQLVEEIRNHALRDSSGVKSLEEVCLQVTDLLPGLRKLRNLLPEHGCLLLSPGNFWQNDWERFHADPDIIGTIHQHEPKTLQTSATLKDLLFGVPGKYSGVSLYTRKRTVSYTITLVFQRYDSRFLSSLRSRLKLLHPSPNCSLRAENLVHVHFKEEIGIAELIPLVTTYIILFAYIYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSSESWSIMKNVATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMFFFTTVLSIDIRRMELADLNKRLPPESCLPSAKPVGRPARYERQLAVRPAMPHTITLQPSSFRNLRLPKRLRVIYFLARTRLAQRLIMAGTVVWIGILVYTDPAGLRTYLAAQVTEQSPLGEGSLGPMPVPSGVLPASRPDPAFSIFPPDAPKLPENQTVPGELPEHAAPAEGVHDSRAPEVTWGPEDEELWRRLSFRHWPTLFNYYNITLAKRYISLLPVIPVTLRLNPQEALEGRQPQDGRSAWAPPESLPAGLWEAGPKGPGGTQAHGDITLYKVAALGLAAGIVLVLLLLCLYRVLCPRNYGQPGGGAGRRRRGELPCDDYGYAPPETEIVPLVLRGHLMDIECLASDGMLLVSCCLAGQVCVWDAQTGDCLTRIPRPGSRRDSCGGGAFETQENWERLSDGGKTSPEEPGESPPLRHRPRGPPQPALFGDQPDLTCLIDTNFSVQLPPEPTQPEPRHRAGCGRARDSGYDFSRLVQRVYQEEGLAAVRMPALRPPSPGSPLPQASQEDGAAPEKGSPPLAWAPSTAGSIWSLELQGNLIVVGRSSGRLEVWDAIEGVLCCSNEEVSSGITALVFLDRRIVAARLNGSLDFFSLETHTSLSPLQFRGTPGRGSSPSSSVYSSSNTVACHLTHTVPCAHQKPITALRAAAGRLVTGSQDHTLRVFRLEDSCCLFTLQGHSGAITTVYIDQTMVLASGGQDGAICLWDVLTGSRVSHTFAHRGDVTSLTCTTSCVISSGLDDLINIWDRSTGIKLYSIQQDLGCGASLGVISDNLLVTGGQGCVSFWDLNYGDLLQTVYLGKNSEAQPARQILVLDNAAIVCNFGSELSLVYVPSVLEKLDDYKDDDDKGSDYKDDDDKGSDYKDDDDK

Source

organism	Cricetulus griseus
common_name	Chinese hamster
ncbi_taxonomy_id	10029
host_organism	Homo sapiens

Entity 4 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 5 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	1

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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	2.80 Å
resolution_method	—
num_particles	272072

fit	/app/data/saxs_computation/py/9py7/9py7.fit
pddf	/app/data/pr_computation/py/9py7/9py7.pr.out
profile	/app/data/saxs_computation/py/9py7/9py7.dat

Hamster Scap L1-L7 domain/Fab4G10 focused map

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 branched

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)