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9qqw

EM structure of Rec-controlled histidine kinase LvrB, BeF3-activated

Method: ELECTRON MICROSCOPY D_max: 117.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qqw
deposition_date	2025-04-02
title	EM structure of Rec-controlled histidine kinase LvrB, BeF3-activated
keywords	Histidine Kinase, SIGNALING PROTEIN; SIGNALING 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	34.76 Å
rg_electron	34.96 Å
i0	41723500.00
molecular_weight	43365.0 kDa
excluded_volume	50828 Å³
envelope_volume	90506 Å³
shell_volume	23867 Å³
envelope_diameter	116.5 Å
shell_rg	37.80 Å
envelope_rg	33.43 Å
shape_rg	34.95 Å
total_rg	35.21 Å
total_atoms	3090
n_residues	566
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	117.8 Å
rg_real	35.05 Å
rg_real_error	1.30 Å
i0_real	4.1720e+07
i0_real_error	6.9250e+05
rg_reciprocal	34.87 Å
i0_reciprocal	41720000.0000
total_estimate	0.8045
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.6 Å
skewness	0.404
kurtosis	-0.618
angular_range	— – 0.2300 Å⁻¹
current_alpha	0.0000
highest_alpha	3977000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.752; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.595; Smooth: 0.603

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	histidine kinase
formula_weight	43426.6 kDa
ec_number	2.7.13.3
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	3097

MNKWKFLFLEDSLVDLELIQRQLNRAKIDYYPIHVSDSEGFSQAILDQKPHLILSDFSLPKYDGFSALKLAKKICPTTPFIFVSGTYGEEAAIQTLTMGATDYVLKDRIEKLLPAVQRALHELEDHELRIKAEKERYELEEQLRQSQKLEAMGVMAGTMAHEINNPLIAISEYAAMIAKGEVDSEKAKQLASKIRDESARISTIMKNLLRFSRDDKGSLYPVEVGEILVKLESITQQIFKMNRIDASWKNVEPGHSIQCREGQILQILLNLVNNAVDSLNQKYPEYDTEKRIILENSIVEENHKKYAEFSIQDFGTGIPIDIQKSIFKTFFTTKSADKGTGLGLSVSLGIAKEHGGSLNFESEPGRYTRFYLRVPIFDPSVQ

Source

organism	Leptospira interrogans serovar Copenhageni
ncbi_taxonomy_id	44275
host_organism	Escherichia coli

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	3

Entity 3 non-polymer

description	BERYLLIUM TRIFLUORIDE ION
formula_weight	66.0 kDa
src_method	syn
entity_count	2

Entity 4 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	1

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	7

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6. Citations (1)

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resolution	5.92 Å
resolution_method	—
num_particles	129432

fit	/app/data/saxs_computation/qq/9qqw/9qqw.fit
pddf	/app/data/pr_computation/qq/9qqw/9qqw.pr.out
profile	/app/data/saxs_computation/qq/9qqw/9qqw.dat