HD6 defensin filament with IP6

Method: ELECTRON MICROSCOPY D_max: 121.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9r7l
deposition_date	2025-05-14
title	HD6 defensin filament with IP6
keywords	filament, intestinal, IP6, phytic acid, ANTIMICROBIAL PROTEIN; ANTIMICROBIAL 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	39.71 Å
rg_electron	39.37 Å
i0	641425000.00
molecular_weight	181680.0 kDa
excluded_volume	216130 Å³
envelope_volume	301360 Å³
shell_volume	62469 Å³
envelope_diameter	131.8 Å
shell_rg	46.40 Å
envelope_rg	38.83 Å
shape_rg	39.40 Å
total_rg	39.64 Å
total_atoms	12420
n_residues	1536
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	121.8 Å
rg_real	39.48 Å
rg_real_error	0.85 Å
i0_real	6.4140e+08
i0_real_error	1.1140e+07
rg_reciprocal	39.62 Å
i0_reciprocal	641500000.0000
total_estimate	0.8899
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	54.8 Å
skewness	0.112
kurtosis	-0.497
angular_range	— – 0.2000 Å⁻¹
current_alpha	0.0000
highest_alpha	68000000.0000
n_real_points	41
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.935; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.767

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

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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	3.00 Å
resolution_method	—
num_particles	72649

description	Defensin-6
formula_weight	3719.3 kDa
src_method	man
entity_count	48

type	polypeptide(L)
strand_id	A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v
atom_count	12428

HD6 defensin filament with IP6

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 (2)

Entity 1 polymer

Polymer

Source

Entity 2 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

description	INOSITOL HEXAKISPHOSPHATE
formula_weight	660.0 kDa
src_method	syn
entity_count	5

fit	/app/data/saxs_computation/r7/9r7l/9r7l.fit
pddf	/app/data/pr_computation/r7/9r7l/9r7l.pr.out
profile	/app/data/saxs_computation/r7/9r7l/9r7l.dat