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1e5f

METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS

Method: X-RAY DIFFRACTION D_max: 90.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1e5f
deposition_date	2000-07-25
title	METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS
keywords	METHIONINE BIOSYNTHESIS, PLP-DEPENDENT ENZYMES, C-S GAMMA LYASE, LYASE; 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	27.93 Å
rg_electron	27.10 Å
i0	118718000.00
molecular_weight	85409.0 kDa
excluded_volume	106570 Å³
envelope_volume	121940 Å³
shell_volume	36807 Å³
envelope_diameter	96.8 Å
shell_rg	35.17 Å
envelope_rg	27.34 Å
shape_rg	27.12 Å
total_rg	27.79 Å
total_atoms	5975
n_residues	786
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	90.8 Å
rg_real	27.89 Å
rg_real_error	0.59 Å
i0_real	1.1870e+08
i0_real_error	1.7090e+06
rg_reciprocal	27.90 Å
i0_reciprocal	118700000.0000
total_estimate	0.8895
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.9 Å
skewness	0.355
kurtosis	-0.295
angular_range	— – 0.2850 Å⁻¹
current_alpha	0.0000
highest_alpha	47690000.0000
n_real_points	58
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.866; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.962

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4. Crystallography & Experiment

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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	6649

MAHERMTPATACIHANPQKDQFGAAIPPIYQTSTFVFDNCQQGGNRFAGQESGYIYTRLGNPTVSNLEGKIAFLEKTEACVATSSGMGAIAATVLTILKAGDHLISDECLYGCTHALFEHALTKFGIQVDFINTAIPGEVKKHMKPNTKIVYFETPANPTLKIIDMERVCKDAHSQEGVLVIADNTFCSPMITNPVDFGVDVVVHSATKYINGHTDVVAGLICGKADLLQQIRMVGIKDITGSVISPHDAWLITRGLSTLNIRMKAESENAMKVAEYLKSHPAVEKVYYPGFEDHEGHDIAKKQMRMYGSMITFILKSGFEGAKKLLDNLKLITLAVSLGGCESLIQHPASMTHAVVPKEEREAAGITDGMIRLSVGIEDADELIADFKQGLDALLRSHHHHHH

Source

organism	TRICHOMONAS VAGINALIS
ncbi_taxonomy_id	412133
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	PYRIDOXAL-5'-PHOSPHATE
formula_weight	247.1 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	6

Entity 4 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	1

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	645

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6. Citations (1)

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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	0.1620
r_free	0.2120

fit	/app/data/saxs_computation/e5/1e5f/1e5f.fit
pddf	/app/data/pr_computation/e5/1e5f/1e5f.pr.out
profile	/app/data/saxs_computation/e5/1e5f/1e5f.dat