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9ubr

CryoEM structure of human Galectin-10 with iTrimbody

Method: ELECTRON MICROSCOPY D_max: 173.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ubr
deposition_date	2025-04-03
title	CryoEM structure of human Galectin-10 with iTrimbody
keywords	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	57.24 Å
rg_electron	57.42 Å
i0	1596240000.00
molecular_weight	339480.0 kDa
excluded_volume	426820 Å³
envelope_volume	685810 Å³
shell_volume	100990 Å³
envelope_diameter	184.4 Å
shell_rg	62.46 Å
envelope_rg	53.20 Å
shape_rg	57.37 Å
total_rg	57.72 Å
total_atoms	23871
n_residues	3103
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	173.1 Å
rg_real	57.06 Å
rg_real_error	1.58 Å
i0_real	1.5960e+09
i0_real_error	3.2180e+07
rg_reciprocal	57.39 Å
i0_reciprocal	1597000000.0000
total_estimate	0.8028
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	76.9 Å
skewness	0.193
kurtosis	-0.110
angular_range	— – 0.1350 Å⁻¹
current_alpha	0.0000
highest_alpha	56290000.0000
n_real_points	28
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.740; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.238

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	PrAC-5350A,2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase
formula_weight	28139.7 kDa
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E,F
atom_count	23871

QANAFAQILNMPNLTEEQRNGFIQSLKDDPSVSKEILAEAKKLNEHQAAKAEEAARKMEELFKKHKIVAVLRANSVEEAIEKAVAVFAGGVHLIEITFTVPDADTVIKALSVLKEKGAIIGAGTVTSVEQCRKAVESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHTILKLFPGEVVGPQFVKAMKGPFPNVKFVPTGGVNLDNVCEWFKAGVLAVGVGSALVKGTPDEVREKAKAFVEKIRGCTE

Source

organism	Thermotoga maritima MSB8
ncbi_taxonomy_id	243274
host_organism	Escherichia coli

Entity 2 polymer

description	hGal10-nanobody
formula_weight	12480.7 kDa
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	G,H,I,J,K,L

EVQLLESGGGSVQAGGSLRLSCTASGYTYSVAWFRQAPGNEREGVAVISNYGATTYSDSVKGRFTISRDNAKNAVSLQMNSLKSEDTAMYYCAAGSAFSLSPGRFPYWGQGTQVTVSS

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
host_organism	Escherichia coli

Entity 3 polymer

description	Galectin-10
formula_weight	16183.4 kDa
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	M,N,O,P,Q,R

SLLPVPYTEAASLSTGSTVTIKGRPLACFLNEPYLQVDFHTEMKEESDIVFHFQVCFGRRVVMNSREYGAWKQQVESKNMPFQDGQEFELSISVLPDKYQVMVNGQSSYTFDHRIKPEAVKMVQVWRDISLTKFNVSYLK

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

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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	2.62 Å
resolution_method	—
num_particles	700092

fit	/app/data/saxs_computation/ub/9ubr/9ubr.fit
pddf	/app/data/pr_computation/ub/9ubr/9ubr.pr.out
profile	/app/data/saxs_computation/ub/9ubr/9ubr.dat

CryoEM structure of human Galectin-10 with iTrimbody

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 (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)