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1dbk

MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY

Method: X-RAY DIFFRACTION D_max: 78.2 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dbk
deposition_date	1993-08-24
title	MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY
keywords	IMMUNOGLOBULIN; IMMUNOGLOBULIN
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	26.08 Å
rg_electron	25.02 Å
i0	38178100.00
molecular_weight	47880.0 kDa
excluded_volume	59915 Å³
envelope_volume	75319 Å³
shell_volume	25247 Å³
envelope_diameter	79.5 Å
shell_rg	32.15 Å
envelope_rg	24.53 Å
shape_rg	25.01 Å
total_rg	25.88 Å
total_atoms	3375
n_residues	435
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	78.2 Å
rg_real	26.04 Å
rg_real_error	0.51 Å
i0_real	3.8180e+07
i0_real_error	4.9020e+05
rg_reciprocal	26.05 Å
i0_reciprocal	38180000.0000
total_estimate	0.9112
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	28.2 Å
skewness	0.211
kurtosis	-0.639
angular_range	— – 0.3050 Å⁻¹
current_alpha	0.0000
highest_alpha	7137000.0000
n_real_points	62
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.988; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.888

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	IGG1-KAPPA DB3 FAB (LIGHT CHAIN)
formula_weight	23880.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L
atom_count	3377

DVVMTQIPLSLPVNLGDQASISCRSSQSLIHSNGNTYLHWYLQKPGQSPKLLMYKVSNRFYGVPDRFSGSGSGTDFTLKISRVEAEDLGIYFCSQSSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090

Entity 2 polymer

description	IGG1-KAPPA DB3 FAB (HEAVY CHAIN)
formula_weight	23754.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

QIQLVQSGPELKKPGETVKISCKASGYAFTNYGVNWVKEAPGKELKWMGWINIYTGEPTYVDDFKGRFAFSLETSASTAYLEINNLKNEDTATYFCTRGDYVNWYFDVWGAGTTVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPR

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090

Entity 3 non-polymer

description	5-BETA-ANDROSTANE-3,17-DIONE
formula_weight	288.4 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	2

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6. Citations (4)

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length_a	134.760 Å
length_b	134.760 Å
length_c	124.210 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 64 2 2
int_tables_number	181
crystal_system	—

resolution	3.000 Å
resolution_low	6.000 Å
r_factor	0.2130
r_work	0.2130
r_free	—

fit	/app/data/saxs_computation/db/1dbk/1dbk.fit
pddf	/app/data/pr_computation/db/1dbk/1dbk.pr.out
profile	/app/data/saxs_computation/db/1dbk/1dbk.dat

MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY

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

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 water

6. Citations (4)

7. Files & Curves (10)

Files (7)

Curves (3)