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9skv

Cryo-EM structure of H. neapolitanus CsoSCA in reducing conditions, dimer, major state, inactive conformation

Method: ELECTRON MICROSCOPY D_max: 108.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9skv
deposition_date	2025-09-02
title	Cryo-EM structure of H. neapolitanus CsoSCA in reducing conditions, dimer, major state, inactive conformation
keywords	Carbonic anhydrase, carboxysome, CO2 concentration mechanism, LYASE; LYASE
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	33.17 Å
rg_electron	32.63 Å
i0	181413000.00
molecular_weight	105940.0 kDa
excluded_volume	131820 Å³
envelope_volume	167410 Å³
shell_volume	43141 Å³
envelope_diameter	115.2 Å
shell_rg	39.26 Å
envelope_rg	32.60 Å
shape_rg	32.62 Å
total_rg	33.17 Å
total_atoms	14618
n_residues	950
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	108.6 Å
rg_real	33.15 Å
rg_real_error	0.73 Å
i0_real	1.8140e+08
i0_real_error	2.6540e+06
rg_reciprocal	33.16 Å
i0_reciprocal	181400000.0000
total_estimate	0.8944
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	106.3 Å
skewness	0.299
kurtosis	-0.519
angular_range	— – 0.2400 Å⁻¹
current_alpha	0.0000
highest_alpha	38980000.0000
n_real_points	49
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.891; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.990; Smooth: 0.959

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Maltose/maltodextrin-binding periplasmic protein,Carboxysome shell carbonic anhydrase
formula_weight	102044.8 kDa
ec_number	4.2.1.1
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	15016

MWSHPQFEKGSSMKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTNSSSNNNNNNNNNNLGIEENLYFQSNANTRNTRSKQRAPFGVSSSVKPRLDLIEQAPNPAYDRHPACITLPERTCRHPLTDLEANEQLGRCEDSVKNRFDRVIPFLQVVAGIPLGLDYVTRVQELAQSSLGHTLPEELLKDNWISGHNLKGIFGYATAKALTAATEQFSRKIMSEKDDSASAIGFFLDCGFHAVDISPCADGRLKGLLPYILRLPLTAFTYRKAYAGSMFDIEDDLAQWEKNELRRYREGVPNTADQPTRYLKIAVYHFSTSDPTHSGCAAHGSNDRAALEAALTQLMKFREAVENAHCCGASIDILLIGVDTDTDAIRVHIPDSKGFLNPYRYVDNTVTYAQTLHLAPDEARVIIHEAILNANRSDGWAKGNGVASEGMRRFIGQLLINNLSQIDYVVNRHGGRYPPNDIGHAERYISVGDGFDEVQIRNLAYYAHLDTVEENAIDVDVGIKIFTKLNLSRGLPIPIAIHYRYDPNVPGSRERTVVKARRIYNAIKERFSSLDEQNLLQFRLSVQAQDIGSPIEEVASA

Source

organism	Halothiobacillus neapolitanus c2
ncbi_taxonomy_id	555778
host_organism	Escherichia coli BL21

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	398

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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	—

resolution	2.120 Å
resolution_low	312.000 Å
r_factor	—
r_work	—
r_free	—

resolution	2.12 Å
resolution_method	—
num_particles	543321

fit	/app/data/saxs_computation/sk/9skv/9skv.fit
pddf	/app/data/pr_computation/sk/9skv/9skv.pr.out
profile	/app/data/saxs_computation/sk/9skv/9skv.dat

Cryo-EM structure of H. neapolitanus CsoSCA in reducing conditions, dimer, major state, inactive conformation

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