SAXSdb — 9u9z

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1. Structure Basics

entry_id	9u9z
deposition_date	2025-03-30
title	Cryo-EM structure of cyanobacterial bicarbonate transporter CmpBCD
keywords	ABC transporter, bicarbonate importer, membrane transporter, nitrate binding, MEMBRANE PROTEIN; MEMBRANE 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	42.16 Å
rg_electron	42.40 Å
i0	331549000.00
molecular_weight	157250.0 kDa
excluded_volume	200560 Å³
envelope_volume	275310 Å³
shell_volume	56542 Å³
envelope_diameter	144.8 Å
shell_rg	45.18 Å
envelope_rg	41.44 Å
shape_rg	42.44 Å
total_rg	42.39 Å
total_atoms	22452
n_residues	1417
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	132.8 Å
rg_real	42.42 Å
rg_real_error	1.08 Å
i0_real	3.3150e+08
i0_real_error	5.6330e+06
rg_reciprocal	42.16 Å
i0_reciprocal	331500000.0000
total_estimate	0.8221
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	43.1 Å
skewness	0.523
kurtosis	-0.278
angular_range	— – 0.1850 Å⁻¹
current_alpha	0.0000
highest_alpha	44570000.0000
n_real_points	38
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.901; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.975; Smooth: 0.008

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	CmpB
formula_weight	30966.5 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	22452

MAASIGNRNGSFGRSLSKFWEKNAQNWALPIVGILGFLIVWQLLTWTGLLKLPGPWDIMAEKSTRNLLLYPFFDRGGTDKGLFWQTLASFERVAKGYSIAAIVGISVGILVGTNAVIDKALDPLFQFLRTVPPLAWVPIALAALRQNEPAALFVIFITAVWPILLNTAVGVKQIPQDYRNVSRVLQLSKQKYFFKILIPSALPYIFTGLRISIGLAWLAIIAAEIIMSGIVGIGFFIWNSYTNDKVGEVILALVYIGAVGLILDRAVAWLQNVILPEEQK

Source

organism	Pseudanabaena sp. Chao 1811
ncbi_taxonomy_id	2963092
host_organism	Escherichia coli

Entity 2 polymer

description	CmpC
formula_weight	73984.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MQDFVLVDQVERTFPLGGGKEYIALKGIDLQIRKGEFISLIGHSGCGKSTLLNMIAGLDLPSGGVVMLEDERVTRPGPDRMVVFQNYSLLPWLSVRENVALAVDEVLSHLPKGERHDLVERYVNMVGLAHAIDKPPTQLSGGMRQRVAIARALAVRPKLLLLDEPFGALDALTRGNLQEKLMQICNEDQITAVMVTHDVDEAVLLSDRIVMLTNGPASKIGNILEVDIPRPRQRMEAVNHPSYYSLRSEIIYFLNQQKRVKKLNARKVTTVAKHGLEKVNLEIGFVPLTACAPIAVAKEKGFFEKHGLDEVSLVRETSWRGIVDGISGGYLDAAQMPSGLPMWLTLGGAGACKPIVTALTMTRNGNAITLDKHFYDRGIHTLADFKAMLQSTRDRQHRMGVVHPSSMHNLLLRYWLAAGGIDPDLDVELKTIPPAQMVVDLKAGSIDGFCVGEPWNFRAAMENIGFTVATDLEIWNGHPGKVLGVREDWANAYPNTHIALVKALLEACMYCADPNNAEEIRQILSRRAYVSTNVNYIHLGNPDDVTCALDTPMREPAHHQFYGAGVNRPSRSEHLWHITQMARWGDVPFPRNWVEVLEKTCRVGVFSTAARELGLTDITYSRNAIQLFDDIPFNAEDPIGYLNHLDIKRNITMAEIAMESVRMVA

Source

organism	Pseudanabaena sp. Chao 1811
ncbi_taxonomy_id	2963092
host_organism	Escherichia coli

Entity 3 polymer

description	CmpD
formula_weight	31282.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

MTQTILEHTNQIAQIPPQESFLRIENVSKIYPTPKGEYVVLKDVNLHIQEGEFICLIGHSGCGKSTLLNMVGGFSKPSIGEVTVNGKLITKPGPDRMVVFQGYALLPWLTVYENVMLAVDSVNPNLSKSEKNDIVRHHLAMVGLSEAAEKKPTQISGGMKQRVSIARALAIRPEVLILDEPFGALDAITKEELQEELLQIWTEHRCTVLMITHDIDEALFLADRLVMMTNGPAANIGEIMRIPFPRPRDRAQIMEDPLYYDLRNTALDFLYNRFAHDE

Source

organism	Pseudanabaena sp. Chao 1811
ncbi_taxonomy_id	2963092
host_organism	Escherichia coli

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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	3.400 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.40 Å
resolution_method	—
num_particles	210668

fit	/app/data/saxs_computation/u9/9u9z/9u9z.fit
pddf	/app/data/pr_computation/u9/9u9z/9u9z.pr.out
profile	/app/data/saxs_computation/u9/9u9z/9u9z.dat

Cryo-EM structure of cyanobacterial bicarbonate transporter CmpBCD

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)