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9qr2

EM structure of Rec-controlled histidine kinase LvrB

Method: ELECTRON MICROSCOPY D_max: 114.1 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qr2
deposition_date	2025-04-02
title	EM structure of Rec-controlled histidine kinase LvrB
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	33.90 Å
rg_electron	33.95 Å
i0	113303000.00
molecular_weight	85630.0 kDa
excluded_volume	107720 Å³
envelope_volume	146130 Å³
shell_volume	38391 Å³
envelope_diameter	121.8 Å
shell_rg	37.94 Å
envelope_rg	33.38 Å
shape_rg	33.96 Å
total_rg	34.27 Å
total_atoms	6024
n_residues	752
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	114.1 Å
rg_real	34.05 Å
rg_real_error	1.15 Å
i0_real	1.1330e+08
i0_real_error	2.0390e+06
rg_reciprocal	33.96 Å
i0_reciprocal	113300000.0000
total_estimate	0.7433
solution_quality	REASONABLE a REASONABLE solution
n_peaks	4
r_peak_primary	46.1 Å
skewness	0.542
kurtosis	0.229
angular_range	— – 0.2350 Å⁻¹
current_alpha	0.0000
highest_alpha	22600000.0000
n_real_points	48
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.608; Stabil: 0.967; Sysdev: 1.000; Positv: 1.000; Valcen: 0.934; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

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	6028

MNKWKFLFLEDSLVDLELIQRQLNRAKIDYYPIHVSDSEGFSQAILDQKPHLILSDFSLPKYDGFSALKLAKKICPTTPFIFVSGTYGEEAAIQTLTMGATDYVLKDRIEKLLPAVQRALHELEDHELRIKAEKERYELEEQLRQSQKLEAMGVMAGTMAHEINNPLIAISEYAAMIAKGEVDSEKAKQLASKIRDESARISTIMKNLLRFSRDDKGSLYPVEVGEILVKLESITQQIFKMNRIDASWKNVEPGHSIQCREGQILQILLNLVNNAVDSLNQKYPEYDTEKRIILENSIVEENHKKYAEFSIQDFGTGIPIDIQKSIFKTFFTTKSADKGTGLGLSVSLGIAKEHGGSLNFESEPGRYTRFYLRVPIFDPSVQ

Source

organism	Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
ncbi_taxonomy_id	267671
host_organism	Escherichia coli

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
formula_weight	523.2 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	4

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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	triclinic

resolution	4.24 Å
resolution_method	—
num_particles	133625

fit	/app/data/saxs_computation/qr/9qr2/9qr2.fit
pddf	/app/data/pr_computation/qr/9qr2/9qr2.pr.out
profile	/app/data/saxs_computation/qr/9qr2/9qr2.dat