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9x8z

LppB in Complex with LppA leader peptide

Method: X-RAY DIFFRACTION D_max: 71.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9x8z
deposition_date	2025-10-20
title	LppB in Complex with LppA leader peptide
keywords	RRE, Complex, Leader peptide, PEPTIDE BINDING PROTEIN; PEPTIDE BINDING 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	21.35 Å
rg_electron	20.56 Å
i0	10795300.00
molecular_weight	24416.0 kDa
excluded_volume	30553 Å³
envelope_volume	37459 Å³
shell_volume	16284 Å³
envelope_diameter	75.2 Å
shell_rg	25.75 Å
envelope_rg	21.10 Å
shape_rg	20.57 Å
total_rg	21.33 Å
total_atoms	1715
n_residues	212
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	71.9 Å
rg_real	21.49 Å
rg_real_error	0.63 Å
i0_real	1.0800e+07
i0_real_error	1.4830e+05
rg_reciprocal	21.47 Å
i0_reciprocal	10800000.0000
total_estimate	0.7731
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	20.1 Å
skewness	0.480
kurtosis	-0.351
angular_range	— – 0.3700 Å⁻¹
current_alpha	0.0000
highest_alpha	4215000.0000
n_real_points	69
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.748; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.803; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	PqqD family protein
formula_weight	12151.5 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,D
atom_count	1814

MADLTGSSHHHHHHSQDPMTQYLRMNDYESIQLDMEWIILNTDEYTLTKLNGVGGFCWSLLGAAQTVGSISEAIRKEYEFVNETVEEDIEAFLNDMIGRGLVQHAVS

Source

organism	Paenibacillus alginolyticus
ncbi_taxonomy_id	59839
host_organism	Escherichia coli BL21(DE3)

Entity 2 polymer

description	LppA-leader
formula_weight	3314.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,C

MEENTKREQKLYARPMVLSQQPVRFET

Source

organism	Paenibacillus alginolyticus
ncbi_taxonomy_id	59839
host_organism	Escherichia coli BL21(DE3)

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	94

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6. Citations (1)

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length_a	52.858 Å
length_b	55.595 Å
length_c	83.866 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	orthorhombic

resolution	2.100 Å
resolution_low	32.850 Å
r_factor	0.2057
r_work	0.2009
r_free	0.2494

fit	/app/data/saxs_computation/x8/9x8z/9x8z.fit
pddf	/app/data/pr_computation/x8/9x8z/9x8z.pr.out
profile	/app/data/saxs_computation/x8/9x8z/9x8z.dat

LppB in Complex with LppA leader peptide

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 (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)