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9ykb

;The von Willebrand factor A domain of human capillary morphogenesis gene II, fused to the 1TEL crystallization chaperone, Ala-Val linker variant, expressed with SUMO tag. ;

Method: X-RAY DIFFRACTION D_max: 139.1 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ykb
deposition_date	2025-10-06
last_revision	2025-10-22
title	;The von Willebrand factor A domain of human capillary morphogenesis gene II, fused to the 1TEL crystallization chaperone, Ala-Val linker variant, expressed with SUMO tag. ;
keywords	;TELSAM, 1TEL, Pointed Domain, Sterile Alpha Motif domain, ETS, TEL, CMG2, vWA Domain, Anthrax toxin receptor 2, PEPTIDE BINDING PROTEIN ;; PEPTIDE BINDING PROTEIN
method	X-RAY DIFFRACTION

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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	38.95 Å
rg_electron	39.30 Å
i0	102737000.00
molecular_weight	84761.0 kDa
excluded_volume	107370 Å³
envelope_volume	138820 Å³
shell_volume	32897 Å³
envelope_diameter	148.2 Å
shell_rg	39.74 Å
envelope_rg	39.70 Å
shape_rg	39.31 Å
total_rg	39.30 Å
total_atoms	5995
n_residues	763
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	139.1 Å
rg_real	39.71 Å
rg_real_error	1.83 Å
i0_real	1.0270e+08
i0_real_error	1.8890e+06
rg_reciprocal	39.24 Å
i0_reciprocal	102700000.0000
total_estimate	0.5183
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	30.5 Å
skewness	0.644
kurtosis	-0.172
angular_range	— – 0.2050 Å⁻¹
current_alpha	0.0000
highest_alpha	8755000.0000
n_real_points	42
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.585; Stabil: 1.000; Sysdev: 0.035; Positv: 1.000; Valcen: 0.480; Smooth: 0.394

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Transcription factor ETV6,Anthrax toxin receptor 2
formula_weight	28675.7 kDa
mutation	R4A,V67E,K77A,R81A,A82V,C215A
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,C,B
atom_count	6220

GSIALPAHLRLQPIYWSRDDVAQWLKWAENEFSLRPIDSNTFEMNGKALLLLTKEDFRYRSPHSGDELYELLQHILAQARAVFDLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQATIILPLTGDRGKISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVPSYAEKEAKISRSLGASVYAVGVLDFEQAQLERIADSKEQVFPVKGGFQALKGIINSILAQS

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	4

Entity 3 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	225

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6. Citations (1)

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length_a	163.745 Å
length_b	163.745 Å
length_c	54.246 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	18

space_group	P 65
int_tables_number	170
crystal_system	hexagonal

resolution	2.500 Å
resolution_low	2.590 Å
r_factor	0.1810
r_work	0.1786
r_free	0.1938

fit	/app/data/saxs_computation/yk/9ykb/9ykb.fit
pddf	/app/data/pr_computation/yk/9ykb/9ykb.pr.out
profile	/app/data/saxs_computation/yk/9ykb/9ykb.dat

;The von Willebrand factor A domain of human capillary morphogenesis gene II, fused to the 1TEL crystallization chaperone, Ala-Val linker variant, expressed with SUMO tag. ;

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

Refinement

Diffraction