SAXSdb — 9pz5

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1. Structure Basics

entry_id	9pz5
deposition_date	2025-08-08
last_revision	2025-12-03
title	Native anti-NANP Fab
keywords	NANP, antibody, Fab, lambda, IMMUNE SYSTEM; IMMUNE SYSTEM
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	25.50 Å
rg_electron	24.51 Å
i0	37589600.00
molecular_weight	47027.0 kDa
excluded_volume	58597 Å³
envelope_volume	72399 Å³
shell_volume	24854 Å³
envelope_diameter	82.9 Å
shell_rg	31.48 Å
envelope_rg	24.22 Å
shape_rg	24.50 Å
total_rg	25.34 Å
total_atoms	3312
n_residues	447
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	81.2 Å
rg_real	25.48 Å
rg_real_error	0.56 Å
i0_real	3.7590e+07
i0_real_error	5.5000e+05
rg_reciprocal	25.49 Å
i0_reciprocal	37590000.0000
total_estimate	0.9082
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	27.5 Å
skewness	0.269
kurtosis	-0.529
angular_range	— – 0.3100 Å⁻¹
current_alpha	0.0000
highest_alpha	6033000.0000
n_real_points	63
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.943; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.980

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	IgG heavy chain
formula_weight	24529.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H
atom_count	3466

EVQLVESGGGLVQPGRSLRLPCTASGFSFGDHAMSWVRQAPGKGLEWVGFIRKTTYGATTHYAAAVRGRFTISRDDSKSIVYLQMNSLKTEDTAVYFCTRVQLDYGPGYQYYGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Cricetulus griseus

Entity 2 polymer

description	IgG lambda light chain
formula_weight	23006.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

ESVLTQPPSVSGAPGQRVTISCTGMNSNIGAGYDVYWYQQLPGRAPKLLIYGNSNRPSGVPDRFSGSRSGTSASLAITGLQAEDEADYYCQSYDTSLNGWAFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLVSDFYPGAVTVAWKADGSPVKVGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCRVTHEGSTVEKTVAPAECS

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Cricetulus griseus

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	100

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6. Citations (1)

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length_a	45.657 Å
length_b	72.785 Å
length_c	138.740 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	orthorhombic

resolution	2.390 Å
resolution_low	29.670 Å
r_factor	0.2000
r_work	0.1939
r_free	0.2564

fit	/app/data/saxs_computation/pz/9pz5/9pz5.fit
pddf	/app/data/pr_computation/pz/9pz5/9pz5.pr.out
profile	/app/data/saxs_computation/pz/9pz5/9pz5.dat

Native anti-NANP Fab

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)