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9ueq

Cryo-EM structure of the CT-PT-BCCP domain of pyruvate carboxylase from Mycobacterium tuberculosis

Method: ELECTRON MICROSCOPY D_max: 108.5 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ueq
deposition_date	2025-04-09
title	Cryo-EM structure of the CT-PT-BCCP domain of pyruvate carboxylase from Mycobacterium tuberculosis
keywords	Pyruvate Carboxylase, BCCP, CT, Mycobacterium tuberculosis, LIGASE; LIGASE
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	35.05 Å
rg_electron	34.08 Å
i0	319329000.00
molecular_weight	142570.0 kDa
excluded_volume	178110 Å³
envelope_volume	244210 Å³
shell_volume	57011 Å³
envelope_diameter	112.9 Å
shell_rg	42.77 Å
envelope_rg	33.94 Å
shape_rg	34.07 Å
total_rg	34.78 Å
total_atoms	19974
n_residues	1342
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	108.5 Å
rg_real	34.86 Å
rg_real_error	0.62 Å
i0_real	3.1930e+08
i0_real_error	4.6420e+06
rg_reciprocal	34.98 Å
i0_reciprocal	319400000.0000
total_estimate	0.9009
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	45.8 Å
skewness	0.136
kurtosis	-0.527
angular_range	— – 0.2250 Å⁻¹
current_alpha	0.0000
highest_alpha	141700000.0000
n_real_points	46
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.932; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.929

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Pyruvate carboxylase
formula_weight	71522.0 kDa
ec_number	6.4.1.1
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	19977

ADRGTKILNFLADVTVNNPYGSRPSTIYPDDKLPDLDLRAAPPAGSKQRLVKLGPEGFARWLRESAAVGVTDTTFRDAHQSLLATRVRTSGLSRVAPYLARTMPQLLSVECWGGATYDVALRFLKEDPWERLATLRAAMPNICLQMLLRGRNTVGYTPYPEIVTSAFVQEATATGIDIFRIFDALNNIESMRPAIDAVRETGSAIAEVAMCYTGDLTDPGEQLYTLDYYLKLAEQIVDAGAHVLAIKDMAGLLRPPAAQRLVSALRSRFDLPVHLHTHDTPGGQLASYVAAWHAGADAVDGAAAPLAGTTSQPALSSIVAAAAHTEYDTGLSLSAVCALEPYWEALRKVYAPFESGLPGPTGRVYHHEIPGGQLSNLRQQAIALGLGDRFEEIEEAYAGADRVLGRLVKVTPTSKVVGDLALALVGAGVSADEFASDPARFGIPESVLGFLRGELGDPPGGWPEPLRTAALAGRGAARPTAQLAADDEIALSSVGAKRQATLNRLLFPSPTKEFNEHREAYGDTSQLSANQFFYGLRQGEEHRVKLERGVELLIGLEAISEPDERGMRTVMCILNGQLRPVLVRDRSIASAVPAAEKADRGNPGHIAAPFAGVVTVGVCVGERVGAGQTIATIEAMKMEAPITAPVAGTVERVAVSDTAQVEGGDLLVVVS

Source

organism	Mycobacterium tuberculosis H37Rv
ncbi_taxonomy_id	83332
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	BIOTIN
formula_weight	244.3 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	3

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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	3.200 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.20 Å
resolution_method	—
num_particles	110575

fit	/app/data/saxs_computation/ue/9ueq/9ueq.fit
pddf	/app/data/pr_computation/ue/9ueq/9ueq.pr.out
profile	/app/data/saxs_computation/ue/9ueq/9ueq.dat

Cryo-EM structure of the CT-PT-BCCP domain of pyruvate carboxylase from Mycobacterium tuberculosis

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

EM 3D