SAXSdb — 9rmm

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1. Structure Basics

entry_id	9rmm
deposition_date	2025-06-18
last_revision	2025-07-23
title	Crystal structure of outer membrane SilC
keywords	SilC, sil, outer membrane, silver resistance, cus, CusC, silver, MEMBRANE PROTEIN; MEMBRANE PROTEIN
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	57.01 Å
rg_electron	58.08 Å
i0	1253010000.00
molecular_weight	290840.0 kDa
excluded_volume	362740 Å³
envelope_volume	552550 Å³
shell_volume	85580 Å³
envelope_diameter	228.0 Å
shell_rg	53.12 Å
envelope_rg	58.51 Å
shape_rg	58.08 Å
total_rg	57.92 Å
total_atoms	20525
n_residues	2620
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	212.0 Å
rg_real	57.79 Å
rg_real_error	2.47 Å
i0_real	1.2530e+09
i0_real_error	2.7480e+07
rg_reciprocal	56.36 Å
i0_reciprocal	1250000000.0000
total_estimate	0.7754
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	53.0 Å
skewness	0.754
kurtosis	0.258
angular_range	— – 0.1400 Å⁻¹
current_alpha	0.0002
highest_alpha	344200000.0000
n_real_points	29
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.496; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.769; Smooth: 0.818

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

Entity 1 polymer

description	Probable outer membrane lipoprotein SilC
formula_weight	51295.5 kDa
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	A,B,D,E,F
atom_count	20536

MFKLKLLSISTIFILAGCVSLAPEYQRPPAPVPQQFSLSKNSLTPAVNSYQDTGWRNFFVDPQVSRLIGEALNNNRDLRMAALKVEEARAQFNVTDADRYPQLNASSGITYNGGLKGDKPTTQEYDAGLELSYELDFFGKLKNMSEADRQNYFASEEARRAVHILLVSNVSQSYFSQQLAYEQLRIARETLKNYEQSYAFVEQQLVTGSTNVLALEQARGQIESTRAEIAKREGDLAQANNALQLVLGTYRAVPSEKGIKGGEIAPVKLPPNLSSQILLQRPDIMEAEYQLKAADANIGAARAAFFPSITLTSGLSSSSTELSSLFTSGSGMWNFIPKIEIPIFNAGRNKANLKLAEIRQQQSVVNYEQKIQSAFKDVSDTLALRDSLSQQLESQQRYLDSLQITLQRARGLYASGAVSYIEVLDAERSLFATQQTILDLTYSRQVNEINLFTALGGGWVEK

Source

organism	Salmonella enterica subsp. enterica serovar Typhimurium
ncbi_taxonomy_id	90371
host_organism	Escherichia coli

Entity 2 polymer

description	Probable outer membrane lipoprotein SilC
formula_weight	51433.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MFKLKLLSISTIFILAGCVSLAPEYQRPPAPVPQQFSLSKNSLTPAVNSYQDTGWRNFFVDPQVSRLIGEALNNNRDLRMAALKVEEARAQFNVTDADRYPQLNASSGITYNGGLKGDKPTTQEYDAGLELSYELDFFGKLKNMSEADRQNYFASEEARRAVHILLVSNVSQSYFSQQLAYEQLRIARETLKNYEQSYAFVEQQLVTGSTNVLALEQARGQIESTRAEIAKREGDLAQANNALQLVLGTYRAVPSEKGIKGGEIAPVKLPPNLSSQILLQRPDIMEAEYQLKAADANIGAARAAFFPSITLTSGLSSSSTELSSLFTSGSGMWNFIPKIEIPIFNAGRNKANLKLAEIRQQQSVVNYEQKIQSAFKDVSDTLALRDSLSQQLESQQRYLDSLQITLQRARGLYASGAVSYIEVLDAERSLFATQQTILDLTYSRQVNEINLFTALGGGWVEKH

Source

organism	Salmonella enterica subsp. enterica serovar Typhimurium
ncbi_taxonomy_id	90371
host_organism	Escherichia coli

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6. Citations (1)

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length_a	88.055 Å
length_b	326.789 Å
length_c	88.101 Å
angle_alpha	90.00 °
angle_beta	120.27 °
angle_gamma	90.00 °
z_pdb	10

space_group	P 1 21 1
int_tables_number	4
crystal_system	monoclinic

resolution	3.200 Å
resolution_low	44.290 Å
r_factor	0.2391
r_work	0.2367
r_free	0.2837

fit	/app/data/saxs_computation/rm/9rmm/9rmm.fit
pddf	/app/data/pr_computation/rm/9rmm/9rmm.pr.out
profile	/app/data/saxs_computation/rm/9rmm/9rmm.dat

Crystal structure of outer membrane SilC

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

Refinement

Diffraction

5. Entities & Polymer Info (2)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)