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1dp4

DIMERIZED HORMONE BINDING DOMAIN OF THE ATRIAL NATRIURETIC PEPTIDE RECEPTOR

Method: X-RAY DIFFRACTION D_max: 117.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dp4
deposition_date	1999-12-23
title	DIMERIZED HORMONE BINDING DOMAIN OF THE ATRIAL NATRIURETIC PEPTIDE RECEPTOR
keywords	periplasmic binding protein fold, dimer, HORMONE/GROWTH FACTOR RECEPTOR, LYASE COMPLEX, HORMONE-GROWTH FACTOR RECEPTOR; HORMONE/GROWTH FACTOR RECEPTOR, LYASE
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	36.17 Å
rg_electron	35.96 Å
i0	148599000.00
molecular_weight	97849.0 kDa
excluded_volume	122250 Å³
envelope_volume	157060 Å³
shell_volume	37417 Å³
envelope_diameter	126.5 Å
shell_rg	40.81 Å
envelope_rg	35.51 Å
shape_rg	35.94 Å
total_rg	36.37 Å
total_atoms	6893
n_residues	854
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	117.8 Å
rg_real	36.41 Å
rg_real_error	1.02 Å
i0_real	1.4860e+08
i0_real_error	2.5920e+06
rg_reciprocal	36.27 Å
i0_reciprocal	148600000.0000
total_estimate	0.8376
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	29.4 Å
skewness	0.418
kurtosis	-0.602
angular_range	— – 0.2200 Å⁻¹
current_alpha	0.0000
highest_alpha	69150000.0000
n_real_points	45
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.784; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.814; Smooth: 0.720

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	ATRIAL NATRIURETIC PEPTIDE RECEPTOR A
formula_weight	48434.8 kDa
ec_number	4.6.1.2
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,C
atom_count	7445

SDLTVAVVLPLTNTSYPWSWARVGPAVELALARVKARPDLLPGWTVRMVLGSSENAAGVCSDTAAPLAAVDLKWEHSPAVFLGPGCVYSAAPVGRFTAHWRVPLLTAGAPALGIGVKDEYALTTRTGPSHVKLGDFVTALHRRLGWEHQALVLYADRLGDDRPCFFIVEGLYMRVRERLNITVNHQEFVEGDPDHYPKLLRAVRRKGRVIYICSSPDAFRNLMLLALNAGLTGEDYVFFHLDVFGQSLKSAQGLVPQKPWERGDGQDRSARQAFQAAKIITYKEPDNPEYLEFLKQLKLLADKKFNFTVEDGLKNIIPASFHDGLLLYVQAVTETLAQGGTVTDGENITQRMWNRSFQGVTGYLKIDRNGDRDTDFSLWDMDPETGAFRVVLNYNGTSQELMAVSEHKLYWPLGYPPPDVPKCGFDNEDPACNQD

Source

organism	Rattus norvegicus
common_name	Norway rat
ncbi_taxonomy_id	10116
host_organism	Chlorocebus aethiops

Entity 2 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	4

Entity 3 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	9

Entity 4 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	2

Entity 5 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	man
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	514

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6. Citations (1)

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length_a	120.250 Å
length_b	120.250 Å
length_c	160.550 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	2.000 Å
resolution_low	30.000 Å
r_factor	—
r_work	0.1980
r_free	0.2250

fit	/app/data/saxs_computation/dp/1dp4/1dp4.fit
pddf	/app/data/pr_computation/dp/1dp4/1dp4.pr.out
profile	/app/data/saxs_computation/dp/1dp4/1dp4.dat