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1dmt

STRUCTURE OF HUMAN NEUTRAL ENDOPEPTIDASE COMPLEXED WITH PHOSPHORAMIDON

Method: X-RAY DIFFRACTION D_max: 85.0 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dmt
deposition_date	1999-12-15
title	STRUCTURE OF HUMAN NEUTRAL ENDOPEPTIDASE COMPLEXED WITH PHOSPHORAMIDON
keywords	HYDROLASE, METALLOPROTEASE, SIGNAL-ANCHOR; HYDROLASE
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	27.40 Å
rg_electron	26.34 Å
i0	107465000.00
molecular_weight	80738.0 kDa
excluded_volume	100650 Å³
envelope_volume	122350 Å³
shell_volume	37866 Å³
envelope_diameter	91.5 Å
shell_rg	34.74 Å
envelope_rg	26.07 Å
shape_rg	26.31 Å
total_rg	27.26 Å
total_atoms	5681
n_residues	696
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	85.0 Å
rg_real	27.24 Å
rg_real_error	0.48 Å
i0_real	1.0750e+08
i0_real_error	1.4420e+06
rg_reciprocal	27.29 Å
i0_reciprocal	107500000.0000
total_estimate	0.8993
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	83.5 Å
skewness	0.181
kurtosis	-0.400
angular_range	— – 0.2900 Å⁻¹
current_alpha	0.0000
highest_alpha	30390000.0000
n_real_points	59
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.911; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.969

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	NEUTRAL ENDOPEPTIDASE
formula_weight	79525.5 kDa
ec_number	3.4.24.11
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	6146

GICKSSDCIKSAARLIQNMDATTEPCTDFFKYACGGWLKRNVIPETSSRYGNFDILRDELEVVLKDVLQEPKTEDIVAVQKAKALYRSCINESAIDSRGGEPLLKLLPDIYGWPVATENWEQKYGASWTAEKAIAQLNSKYGKKVLINLFVGTDDKNSVNHVIHIDQPRLGLPSRDYYECTGIYKEACTAYVDFMISVARLIRQEERLPIDENQLALEMNKVMELEKEIANATAKPEDRNDPMLLYNKMTLAQIQNNFSLEINGKPFSWLNFTNEIMSTVNISITNEEDVVVYAPEYLTKLKPILTKYSARDLQNLMSWRFIMDLVSSLSRTYKESRNAFRKALYGTTSETATWRRCANYVNGNMENAVGRLYVEAAFAGESKHVVEDLIAQIREVFIQTLDDLTWMDAETKKRAEEKALAIKERIGYPDDIVSNDNKLNNEYLELNYKEDEYFENIIQNLKFSQSKQLKKLREKVDKDEWISGAAVVNAFYSSGRNQIVFPAGILQPPFFSAQQSNSLNYGGIGMVIGHEITHGFDDNGRNFNKDGDLVDWWTQQSASNFKEQSQCMVYQYGNFSWDLAGGQHLNGINTLGENIADNGGLGQAYRAYQNYIKKNGEEKLLPGLDLNHKQLFFLNFAQVWCGTYRPEYAVNSIKTDVHSPGNFRIIGTLQNSAEFSEAFHCRKNSYMNPEKKCRVW

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Saccharomyces cerevisiae

Entity 2 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	man
entity_count	3

Entity 3 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	N-ALPHA-L-RHAMNOPYRANOSYLOXY(HYDROXYPHOSPHINYL)-L-LEUCYL-L-TRYPTOPHAN
formula_weight	543.5 kDa
src_method	syn
entity_count	1

Entity 5 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	465

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6. Citations (1)

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length_a	107.580 Å
length_b	107.580 Å
length_c	112.840 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 32 2 1
int_tables_number	154
crystal_system	—

resolution	2.100 Å
resolution_low	20.000 Å
r_factor	0.1950
r_work	0.1950
r_free	0.2420

fit	/app/data/saxs_computation/dm/1dmt/1dmt.fit
pddf	/app/data/pr_computation/dm/1dmt/1dmt.pr.out
profile	/app/data/saxs_computation/dm/1dmt/1dmt.dat