← Back to search

1e5e

METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS IN COMPLEX WITH PROPARGYLGLYCINE

Method: X-RAY DIFFRACTION D_max: 94.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1e5e
deposition_date	2000-07-25
title	METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS IN COMPLEX WITH PROPARGYLGLYCINE
keywords	METHIONINE BIOSYNTHESIS, PLP-DEPENDENT ENZYMES, C-S GAMMA LYASE, LYASE; LYASE
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	28.12 Å
rg_electron	27.23 Å
i0	120180000.00
molecular_weight	86135.0 kDa
excluded_volume	107600 Å³
envelope_volume	123210 Å³
shell_volume	36997 Å³
envelope_diameter	100.0 Å
shell_rg	35.25 Å
envelope_rg	27.52 Å
shape_rg	27.23 Å
total_rg	27.97 Å
total_atoms	6026
n_residues	787
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

▼

3. P(r) Analysis (GNOM)

dmax	94.2 Å
rg_real	28.10 Å
rg_real_error	0.57 Å
i0_real	1.2020e+08
i0_real_error	1.6690e+06
rg_reciprocal	28.11 Å
i0_reciprocal	120200000.0000
total_estimate	0.8794
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	32.0 Å
skewness	0.371
kurtosis	-0.266
angular_range	— – 0.2800 Å⁻¹
current_alpha	0.0000
highest_alpha	48620000.0000
n_real_points	57
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.817; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.985

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (5)

Entity 1 polymer

description	METHIONINE GAMMA-LYASE
formula_weight	44149.6 kDa
ec_number	4.4.1.11
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	6933

MAHERMTPATACIHANPQKDQFGAAIPPIYQTSTFVFDNCQQGGNRFAGQESGYIYTRLGNPTVSNLEGKIAFLEKTEACVATSSGMGAIAATVLTILKAGDHLISDECLYGCTHALFEHALTKFGIQVDFINTAIPGEVKKHMKPNTKIVYFETPANPTLKIIDMERVCKDAHSQEGVLVIADNTFCSPMITNPVDFGVDVVVHSATKYINGHTDVVAGLICGKADLLQQIRMVGIKDITGSVISPHDAWLITRGLSTLNIRMKAESENAMKVAEYLKSHPAVEKVYYPGFEDHEGHDIAKKQMRMYGSMITFILKSGFEGAKKLLDNLKLITLAVSLGGCESLIQHPASMTHAVVPKEEREAAGITDGMIRLSVGIEDADELIADFKQGLDALLRSHHHHHH

Source

organism	TRICHOMONAS VAGINALIS
ncbi_taxonomy_id	412133
host_organism	ESCHERICHIA COLI M15

Entity 2 non-polymer

description	N-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)NORVALINE
formula_weight	362.3 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	5

Entity 4 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	2

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	847

▶

6. Citations (2)

▶

length_a	88.258 Å
length_b	88.258 Å
length_c	217.849 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 31 1 2
int_tables_number	151
crystal_system	—

resolution	2.180 Å
resolution_low	25.000 Å
r_factor	—
r_work	0.1400
r_free	0.1930

fit	/app/data/saxs_computation/e5/1e5e/1e5e.fit
pddf	/app/data/pr_computation/e5/1e5e/1e5e.pr.out
profile	/app/data/saxs_computation/e5/1e5e/1e5e.dat