SAXSdb — 6v4a

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Neur_chan_LBD domain-containing protein

uncultured Desulfofustis sp. PB-SRB1

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 5	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 5 PHOSPHATIDYLGLYCEROL-PHOSPHOGLYCEROL × 5	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	V4JF97_9DELT
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–642； UniProt 1–642 Author chain B； PDBConstruct 1–642； UniProt 1–642 Author chain C； PDBConstruct 1–642； UniProt 1–642 Author chain D； PDBConstruct 1–642； UniProt 1–642 Author chain E； PDBConstruct 1–642； UniProt 1–642

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	6v4a
Deposition date deposition_date	2019-11-27
Structure title title	An open conformation of a Pentameic ligand-gated ion channel with additional N-terminal domain
Keywords keywords	Pentameric ligand-gated ion channel, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

6v4a__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

6v4a__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

6v4a__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	47.96 Å
Rg (electron density)	48.24 Å
Total Rg	48.59 Å
Atom count	23190
Residues	2955
Excluded volume	413990 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`6v4a__assembly_1__model_1`	pentameric （5）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	Neur_chan_LBD domain-containing protein
Molecular weight formula_weight	71734.0 kDa
Source method src_method	man
Copy count entity_count	5

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,E,D,C,B
Atom count atom_count	23190

MHNLQQLLPTRSLIWIFSFLTSISIWCTVAHAETEGRVQHFTGYIEDGRGIFYSLPDMKQGDIIYASMQNTGGNLDPLVGIMAEEIDPAVSLGQVLEKALASENDLISELTAVADRIFLGWDDDGGKGYSASLEFTIPRDGTYHIFAGSTITNQRLDKFQPTYTTGSFQLILGLNAPQVISGEGEPEGEVFASLASLEIKPEAHVQELEIRLDKDTRYLTQHTRNLQPGDTFHALVEPIGEAPLPRLRLTDSGGKPLAFGLIDQPGESVELNYTCDQDICELVVHVDGTDGQKDSGEAVYRLLVGINAPNLRESGQTPVGSSVFLESDLVTVGLAVDQIVGVDQRSENFSVVGTLKLSWHDPKLGFSPDQCGCTVKSFEDASIRAVAGEINLPLPSFSFYNQQGNRWSQNQVIFVTPDGRASYFERFTVTLQAPDFDFLAYPFDRQKFSIKVDLAVPTNMFIFNEIERFQQVVGDQLGEEEWVVTSYSQEITEVPFERGSTNSRFTTTLLVKRNLEYYILRIFVPLFLIISVSWVIFFLKDYGRQLEVASGNLLVFVAFNFTISGDLPRLGYLTVLDRFMIVSFCLTAIVVLISVCQKRLGAVGKQAVAAQIDTWVLVIYPLVYSLYIIWVYLRFFTDHIGW

Source Source

Source organism organism	uncultured Desulfofustis sp. PB-SRB1
NCBI taxonomy ID ncbi_taxonomy_id	1385624
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Molecular weight formula_weight	122.1 kDa
Source method src_method	syn
Copy count entity_count	5

Entity 3 Entity 3 non-polymer

Description description	PHOSPHATIDYLGLYCEROL-PHOSPHOGLYCEROL
Molecular weight formula_weight	873.0 kDa
Source method src_method	syn
Copy count entity_count	5

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Unit-cell length a length_a	141.064 Å
Unit-cell length b length_b	116.028 Å
Unit-cell length c length_c	169.630 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	109.17 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	10

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	3.830 Å
Low-resolution limit resolution_low	25.000 Å
R factor r_factor	0.2574
R_work r_work	0.2556
R_free r_free	0.2914

An open conformation of a Pentameic ligand-gated ion channel with additional N-terminal domain

1. Protein Identity and Related Structures Protein Identity & Related Structures

Neur_chan_LBD domain-containing protein

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

6v4a__assembly_1__model_1

6v4a__assembly_1__model_1 | I(q)

6v4a__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

7. Citations (1)

An open conformation of a Pentameic ligand-gated ion channel with additional N-terminal domain

1. Protein Identity and Related Structures Protein Identity & Related Structures

Neur_chan_LBD domain-containing protein

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

6v4a__assembly_1__model_1

6v4a__assembly_1__model_1 | I(q)

6v4a__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

7. Citations (1)