SAXSdb — 9z82

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

Gap junction alpha-8 protein

OrganismNot specified

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein homooligomer Homooligomer Protein × 12 PDB declaration: dodecameric（12） Consistent with protein copy count	Chain A； UniProt 1–440 Chain B； UniProt 1–440 Chain C； UniProt 1–440 Chain D； UniProt 1–440 Chain E； UniProt 1–440 Chain F； UniProt 1–440 Chain G； UniProt 1–440 Chain H； UniProt 1–440 Chain I； UniProt 1–440 Chain J； UniProt 1–440 Chain K； UniProt 1–440 Chain L； UniProt 1–440	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 312	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.4 cryo-EM vitrification conditions：Cryogen ETHANE	Resolution 2.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 9Z82	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
6MHY Structure of connexin-50 intercellular gap junction channel at 3.4 angstrom resolution by cryoEM Deposited 2018-09-18	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.40 Å
7JJP Sheep Connexin-50 at 1.9 angstroms resolution by CryoEM Deposited 2020-07-27	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 180	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 1.94 Å
7JLW Sheep Connexin-50 at 2.5 angstroms resolution, Lipid Class 1 Deposited 2020-07-30	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 132	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.50 Å
7JM9 Sheep Connexin-50 at 2.5 angstroms reoslution, Lipid Class 2 Deposited 2020-07-31	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 168	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.50 Å
7JMC Sheep Connexin-50 at 2.5 angstroms resolution, Lipid Class 3 Deposited 2020-07-31	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 144	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.50 Å
9Z7W Stable open sheep connexin-50 in amphipol at low pH Deposited 2025-11-17	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 5.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.70 Å
9Z8L Destabilized open state sheep connexin-50 in DMPC nanodiscs at neutral pH Deposited 2025-11-18	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 276	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.20 Å
9Z9B Gated state sheep connexin-50 in DMPC nanodiscs at neutral pH Deposited 2025-11-18	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 192	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.70 Å
9Z9H Stable open state sheep connexin-50 in DMPC nanodiscs at low pH Deposited 2025-11-18	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 180	ELECTRON MICROSCOPY cryo-EM buffer pH 5.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.50 Å
9Z9W Destabilized open state sheep connexin-50 in DMPC nanodiscs at low pH Deposited 2025-11-18	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 288	ELECTRON MICROSCOPY cryo-EM buffer pH 5.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.20 Å
9Z9Y Gated state sheep connexin-50 in DMPC nanodiscs at low pH Deposited 2025-11-18	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 396	ELECTRON MICROSCOPY cryo-EM buffer pH 5.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.30 Å
9ZA4 Asymmetrically gated state sheep connexin-50 in DMPC nanodiscs at low pH Deposited 2025-11-19	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric	Chain A 1–440（440 aa） Chain B 1–440（440 aa） Chain C 1–440（440 aa） Chain D 1–440（440 aa） Chain E 1–440（440 aa） Chain F 1–440（440 aa） Chain G 1–440（440 aa） Chain H 1–440（440 aa） Chain I 1–440（440 aa） Chain J 1–440（440 aa） Chain K 1–440（440 aa） Chain L 1–440（440 aa）	Not recorded	MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 252	ELECTRON MICROSCOPY cryo-EM buffer pH 5.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.40 Å

12 other PDB entries and 12 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	CXA8_SHEEP
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–440； UniProt 1–440 Author chain B； PDBConstruct 1–440； UniProt 1–440 Author chain C； PDBConstruct 1–440； UniProt 1–440 Author chain D； PDBConstruct 1–440； UniProt 1–440 Author chain E； PDBConstruct 1–440； UniProt 1–440 Author chain F； PDBConstruct 1–440； UniProt 1–440 Author chain G； PDBConstruct 1–440； UniProt 1–440 Author chain H； PDBConstruct 1–440； UniProt 1–440 Author chain I； PDBConstruct 1–440； UniProt 1–440 Author chain J； PDBConstruct 1–440； UniProt 1–440 Author chain K； PDBConstruct 1–440； UniProt 1–440 Author chain L； PDBConstruct 1–440； UniProt 1–440

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	9z82
Deposition date deposition_date	2025-11-18
Structure title title	Stable open state sheep connexin-50 in DMPC nanodiscs at neutral pH
Keywords keywords	connexin, gap junction, cryo-EM, pH regulation, lipid gating, large-pore channel, MEMBRANE PROTEIN; MEMBRANE PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	47.11 Å
Radius of gyration Rg (electron density) rg_electron	47.84 Å
Forward intensity I(0) i0	700206000.00
Molecular weight molecular_weight	312980.0 kDa
Excluded volume excluded_volume	430640 Å³
Envelope volume envelope_volume	564720 Å³
Hydration-shell volume shell_volume	94639 Å³
Envelope diameter envelope_diameter	166.3 Å
Shell Rg shell_rg	54.96 Å
Envelope Rg envelope_rg	48.11 Å
Shape Rg shape_rg	47.81 Å
Total Rg total_rg	48.39 Å
Total atoms total_atoms	47544
Residues n_residues	2280
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	167.4 Å
Rg (real space) rg_real	47.66 Å
Rg uncertainty (real space) rg_real_error	2.05 Å
I(0) (real space) i0_real	7.0020e+08
I(0) uncertainty (real space) i0_real_error	1.4220e+07
Rg (reciprocal space) rg_reciprocal	47.12 Å
I(0) (reciprocal space) i0_reciprocal	699700000.0000
Solution quality estimate total_estimate	0.7824
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	45.6 Å
Skewness Skewness skewness	0.610
Kurtosis Kurtosis kurtosis	-0.285
Angular range angular_range	— – 0.1650 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	96260000.0000
Real-space data points n_real_points	34
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.485; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.934; Smooth: 0.779

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	Gap junction alpha-8 protein
Molecular weight formula_weight	49216.8 kDa
Source method src_method	nat
Copy count entity_count	12

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H,I,J,K,L
Atom count atom_count	48132

MGDWSFLGNILEEVNEHSTVIGRVWLTVLFIFRILILGTAAEFVWGDEQSDFVCNTQQPGCENVCYDEAFPISHIRLWVLQIIFVSTPSLVYVGHAVHHVRMEEKRKEREAEELSQQSPGNGGERAPLAADQGSVKKSSSSSKGTKKFRLEGTLLRTYVCHIIFKTLFEVGFIVGHYFLYGFRILPLYRCSRWPCPNVVDCFVSRPTEKTIFILFMLSVASVSLFLNILEMSHLGLKKIRSAFKRPVEQPLGEIPEKSLHSIAVSSIQKAKGYQLLEEEKIVSHYFPLTEVGMVEASPLSAKPFSQFEEKVGPGPLGDLSRAYQETLPSYAQVGAQEGVEEEQPIEAAAEPEVGDKSQEAERVSTEGEETLAVLEEEKVEPPEVEKEAEKEETPPEKVSKQELTPEKAPSLCAELPGEDTRPLSRLSKASSRARSDDLTV

Entity 2 Entity 2 non-polymer

Description description	1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE
Molecular weight formula_weight	677.9 kDa
Source method src_method	syn
Copy count entity_count	312

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	588

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8. Citations (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

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

Resolution resolution	2.000 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	2.00 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	311313

fit	/app/data/saxs_computation/z8/9z82/9z82.fit
pddf	/app/data/pr_computation/z8/9z82/9z82.pr.out
profile	/app/data/saxs_computation/z8/9z82/9z82.dat

Stable open state sheep connexin-50 in DMPC nanodiscs at neutral pH

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

Gap junction alpha-8 protein

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)