SAXSdb — 1f3j

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1. Structure Basics

entry_id	1f3j
deposition_date	2000-06-04
title	HISTOCOMPATIBILITY ANTIGEN I-AG7
keywords	HISTOCOMPATIBILITY ANTIGEN, MHC, PEPTIDE COMPLEX, 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	31.96 Å
rg_electron	31.34 Å
i0	132009000.00
molecular_weight	90375.0 kDa
excluded_volume	112550 Å³
envelope_volume	146110 Å³
shell_volume	39460 Å³
envelope_diameter	108.2 Å
shell_rg	38.06 Å
envelope_rg	30.79 Å
shape_rg	31.34 Å
total_rg	31.89 Å
total_atoms	6392
n_residues	766
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	103.1 Å
rg_real	31.94 Å
rg_real_error	0.77 Å
i0_real	1.3200e+08
i0_real_error	2.0560e+06
rg_reciprocal	31.95 Å
i0_reciprocal	132000000.0000
total_estimate	0.8983
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	35.1 Å
skewness	0.297
kurtosis	-0.520
angular_range	— – 0.2500 Å⁻¹
current_alpha	0.0000
highest_alpha	16880000.0000
n_real_points	51
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.919; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.919

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN
formula_weight	20792.3 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,D
atom_count	6464

IEADHVGFYGTTVYQSPGDIGQYTHEFDGDELFYVDLDKKKTVWRLPEFGQLILFEPQGGLQNIAAEKHNLGILTKRSNFTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVTDGVYETSFLVNRDHSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPE

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	MHC CLASS II NOD
formula_weight	22179.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,E

ERHFVHQFKGECYFTNGTQRIRLVTRYIYNREEYLRFDSDVGEYRAVTELGRHSAEYYNKQYLERTRAELDTACRHNYEETEVPTSLRRLEQPNVAISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEMTPHQGEVYTCHVEHPSLKSPITVEWRAQ

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Spodoptera frugiperda

Entity 3 polymer

description	LYSOZYME C
formula_weight	1671.9 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	P,Q

AMKRHGLDNYRGYS

Source

organism	Gallus gallus
common_name	chicken
ncbi_taxonomy_id	9031
host_organism	Spodoptera frugiperda

Entity 4 non-polymer

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

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	72

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6. Citations (1)

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length_a	109.540 Å
length_b	109.540 Å
length_c	176.360 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	P 41 21 2
int_tables_number	92
crystal_system	—

resolution	3.100 Å
resolution_low	19.820 Å
r_factor	0.2210
r_work	0.2210
r_free	0.2990

fit	/app/data/saxs_computation/f3/1f3j/1f3j.fit
pddf	/app/data/pr_computation/f3/1f3j/1f3j.pr.out
profile	/app/data/saxs_computation/f3/1f3j/1f3j.dat

HISTOCOMPATIBILITY ANTIGEN I-AG7

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 (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)