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11rn

Complex of B19V VP1u RBD and human transferrin receptor ectodomain

Method: ELECTRON MICROSCOPY D_max: 133.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	11rn
deposition_date	2026-03-10
title	Complex of B19V VP1u RBD and human transferrin receptor ectodomain
keywords	TfR, B19V, VP1u, RBD, 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	38.70 Å
rg_electron	38.26 Å
i0	361541000.00
molecular_weight	158400.0 kDa
excluded_volume	199670 Å³
envelope_volume	263310 Å³
shell_volume	57493 Å³
envelope_diameter	140.1 Å
shell_rg	43.79 Å
envelope_rg	38.71 Å
shape_rg	38.23 Å
total_rg	38.72 Å
total_atoms	11200
n_residues	1398
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	133.2 Å
rg_real	38.80 Å
rg_real_error	1.03 Å
i0_real	3.6150e+08
i0_real_error	6.5690e+06
rg_reciprocal	38.74 Å
i0_reciprocal	361500000.0000
total_estimate	0.8667
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	42.2 Å
skewness	0.435
kurtosis	-0.276
angular_range	— – 0.2050 Å⁻¹
current_alpha	0.0000
highest_alpha	70210000.0000
n_real_points	42
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.793; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.988; Smooth: 0.897

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Transferrin receptor protein 1, serum form
formula_weight	71343.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	11200

LYWDDLKRKLSEKLDSTDFTGTIKLLNENSYVPREAGSQKDENLALYVENQFREFKLSKVWRDQHFVKIQVKDSAQNSVIIVDKNGRLVYLVENPGGYVAYSKAATVTGKLVHANFGTKKDFEDLYTPVNGSIVIVRAGKITFAEKVANAESLNAIGVLIYMDQTKFPIVNAELSFFGHAHLGTGDPYTPGFPSFNHTQFPPSRSSGLPNIPVQTISRAAAEKLFGNMEGDCPSDWKTDSTCRMVTSESKNVKLTVSNVLKEIKILNIFGVIKGFVEPDHYVVVGAQRDAWGPGAAKSGVGTALLLKLAQMFSDMVLKDGFQPSRSIIFASWSAGDFGSVGATEWLEGYLSSLHLKAFTYINLDKAVLGTSNFKVSASPLLYTLIEKTMQNVKHPVTGQFLYQDSNWASKVEKLTLDNAAFPFLAYSGIPAVSFCFCEDTDYPYLGTTMDTYKELIERIPELNKVARAAAEVAGQFVIKLTHDVELNLDYERYNSQLLSFVRDLNQYRADIKEMGLSLQWLYSARGDFFRATSRLTTDFGNAEKTDRFVMKKLNDRVMRVEYHFLSPYVSPKESPFRHVFWGSGSHTLPALLENLKLRKQNNGAFNETLFRNQLALATWTIQGAANALSGDVWDIDN

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	VP1 structural protein
formula_weight	7357.1 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	X,Y

WWESDDEFAKAVYQQFVEFYEKVTGTDLELIQILKDHYNISLDNPLENPSSLFDLVARIKNN

Source

organism	Human parvovirus B19
ncbi_taxonomy_id	10798
host_organism	Homo sapiens

Entity 3 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	6

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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	2.40 Å
resolution_method	—
num_particles	613000

fit	/app/data/saxs_computation/1r/11rn/11rn.fit
pddf	/app/data/pr_computation/1r/11rn/11rn.pr.out
profile	/app/data/saxs_computation/1r/11rn/11rn.dat

Complex of B19V VP1u RBD and human transferrin receptor ectodomain

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 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)