Homotrimer of the extracellular PPIase Mpn444 from Mycoplasma pneumoniae

Method: ELECTRON MICROSCOPY D_max: 175.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qgq
deposition_date	2025-03-14
title	Homotrimer of the extracellular PPIase Mpn444 from Mycoplasma pneumoniae
keywords	Lipoprotein Mycoplasma pneumoniae PPIase Homotrimer, MEMBRANE PROTEIN; MEMBRANE PROTEIN
method	ELECTRON MICROSCOPY

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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	55.76 Å
rg_electron	55.41 Å
i0	1744090000.00
molecular_weight	353340.0 kDa
excluded_volume	443370 Å³
envelope_volume	627380 Å³
shell_volume	94612 Å³
envelope_diameter	178.4 Å
shell_rg	57.37 Å
envelope_rg	54.13 Å
shape_rg	55.41 Å
total_rg	55.46 Å
total_atoms	24993
n_residues	3126
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	175.6 Å
rg_real	55.61 Å
rg_real_error	1.50 Å
i0_real	1.7440e+09
i0_real_error	3.5630e+07
rg_reciprocal	55.87 Å
i0_reciprocal	1745000000.0000
total_estimate	0.8344
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	62.7 Å
skewness	0.161
kurtosis	-0.592
angular_range	— – 0.1400 Å⁻¹
current_alpha	0.0000
highest_alpha	71550000.0000
n_real_points	29
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.953; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

Entity 1 polymer

description	Homotrimer of the extracellular PPIase Mpn444 from Mycoplasma pneumoniae
formula_weight	117943.3 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	24993

AQPTASTVEGLFKPSSAFADRTDFSLSSILQKSLINRESFNQYLAMRLAPVLRTFYEDNYDTDIKERLNGFTADTDNAFVSQEQNLRNQFRENYLVHLQTDIFDNTGGNQAAWKLRDVNNKIIDDFISRIFAKNFVEYVQDGVGPLTKPTKSLIENTSNFKNIKLQPKFVNKNAKLKINNDAVYAAIQDKLLDQFITNENPNLVSRVVFTNETPVDGFDNYFNTKVIQSPTPSYQFQVFNKYNQQSGGTKGANGFNLLASNLKSYKNDQSKGIDIPNKFSSDSGGKLLLKASDMFDTFDPSFSAAFIQGYLALQKKSKGADSKEVDSLIKDKSIIENFFVDNNTTVHKTDLVKIFGDKDVFAGEYKQQISKAVVDLIEVKKDSSSQPDYILSRGKDGIHLMAVDGGSHYLTESGRDVAKQKKFLLFRALQTKYGLVDTDTTYDFKLFDEVKKYFDTNRILFLFEALLDLSSDTNNKDNFLSYPQFKKFADSIKSIEKDLKELVQAHYKQAVFNETAVAENKVTLKLAERNQPFIDNERNNQIEQNGLAAKLPYEQDAKTGHYNDLGNYYKDIIDNVDKKGNFSEEVVSKLKDNKKKVEEAAKKHVEALKVFTIPSPLYSQVILVQTKLSFTPESTSLGLNLALNNYLTSTELQNSIKLSYFQEDEAFKKIIDITNLTFSQQSGGTGGTNGNNNLTADNWKIFKETYLLDLFESQAQKSIFGHVGIEGVLDTLYSSLNLEERLDSDDVIDYLSYLYTAHWLLKDNLKNYKQSLQSKLSRTSNAFLVWSVDSEKNKDNNSDITQTEVKNPNFVFGSSVYDRYGFRGIVTSSTSGSLPEAVSRRLFKQFVNQTNNAYKGALFSFGSMDNLKNIINGIQTQTEFDALYNHLTSDLNIDVTGVDKNKTLTEQKTSLTSFVDSNFKQKDVFSRFDGYIGDNKVEEKNYTSYQFLSDGGKYHATFVKQVNLDDVEKIGTDSLKQEDSSKDKRLNLSLEEFLAAIALEALDPNNQTQAINALISGNKKGLVKVGDFRIFSSISAQWVRRF

Source

organism	Mycoplasmoides pneumoniae M129
ncbi_taxonomy_id	272634
host_organism	Escherichia coli

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	4.50 Å
resolution_method	—
num_particles	506291

fit	/app/data/saxs_computation/qg/9qgq/9qgq.fit
pddf	/app/data/pr_computation/qg/9qgq/9qgq.pr.out
profile	/app/data/saxs_computation/qg/9qgq/9qgq.dat

Homotrimer of the extracellular PPIase Mpn444 from Mycoplasma pneumoniae

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

EM 3D

5. Entities & Polymer Info (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)