7xki

Human Cx36/GJD2 (N-terminal deletion BRIL-fused mutant) gap junction channel in soybean lipids (D6 symmetry)

Method: ELECTRON MICROSCOPY Dmax: 153.3 Å Quality: GOOD

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

Gap junction delta-2 protein,Soluble cytochrome b562

Homo sapiens

UniProt P0ABE7

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Homooligomer Protein × 12 PDB declaration: dodecameric(12) Consistent with protein copy count Chain A; UniProt 23–128 Chain B; UniProt 23–128 Chain C; UniProt 23–128 Chain D; UniProt 23–128 Chain E; UniProt 23–128 Chain F; UniProt 23–128 Chain G; UniProt 23–128 Chain H; UniProt 23–128 Chain I; UniProt 23–128 Chain J; UniProt 23–128 Chain K; UniProt 23–128 Chain L; UniProt 23–128 Mutation:M29W,H124I,R128L MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 48 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.40 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.

714 other PDB entries and 822 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name C562_ECOLX
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 94–199; UniProt 23–128 Author chain B; PDBConstruct 94–199; UniProt 23–128 Author chain C; PDBConstruct 94–199; UniProt 23–128 Author chain D; PDBConstruct 94–199; UniProt 23–128 Author chain E; PDBConstruct 94–199; UniProt 23–128 Author chain F; PDBConstruct 94–199; UniProt 23–128 Author chain G; PDBConstruct 94–199; UniProt 23–128 Author chain H; PDBConstruct 94–199; UniProt 23–128 Author chain I; PDBConstruct 94–199; UniProt 23–128 Author chain J; PDBConstruct 94–199; UniProt 23–128 Author chain K; PDBConstruct 94–199; UniProt 23–128 Author chain L; PDBConstruct 94–199; UniProt 23–128

Gap junction delta-2 protein,Soluble cytochrome b562

Homo sapiens

UniProt Q9UKL4

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Homooligomer Protein × 12 PDB declaration: dodecameric(12) Consistent with protein copy count Chain A; UniProt 1–108 Chain A; UniProt 188–321 Chain B; UniProt 1–108 Chain B; UniProt 188–321 Chain C; UniProt 1–108 Chain C; UniProt 188–321 Chain D; UniProt 1–108 Chain D; UniProt 188–321 Chain E; UniProt 1–108 Chain E; UniProt 188–321 Chain F; UniProt 1–108 Chain F; UniProt 188–321 Chain G; UniProt 1–108 Chain G; UniProt 188–321 Chain H; UniProt 1–108 Chain H; UniProt 188–321 Chain I; UniProt 1–108 Chain I; UniProt 188–321 Chain J; UniProt 1–108 Chain J; UniProt 188–321 Chain K; UniProt 1–108 Chain K; UniProt 188–321 Chain L; UniProt 1–108 Chain L; UniProt 188–321 Mutation:M29W,H124I,R128L MC3 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE × 48 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.40 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.

23 other PDB entries and 23 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CXD2_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–93; UniProt 1–108 Author chain A; PDBConstruct 200–333; UniProt 188–321 Author chain B; PDBConstruct 1–93; UniProt 1–108 Author chain B; PDBConstruct 200–333; UniProt 188–321 Author chain C; PDBConstruct 1–93; UniProt 1–108 Author chain C; PDBConstruct 200–333; UniProt 188–321 Author chain D; PDBConstruct 1–93; UniProt 1–108 Author chain D; PDBConstruct 200–333; UniProt 188–321 Author chain E; PDBConstruct 1–93; UniProt 1–108 Author chain E; PDBConstruct 200–333; UniProt 188–321 Author chain F; PDBConstruct 1–93; UniProt 1–108 Author chain F; PDBConstruct 200–333; UniProt 188–321 Author chain G; PDBConstruct 1–93; UniProt 1–108 Author chain G; PDBConstruct 200–333; UniProt 188–321 Author chain H; PDBConstruct 1–93; UniProt 1–108 Author chain H; PDBConstruct 200–333; UniProt 188–321 Author chain I; PDBConstruct 1–93; UniProt 1–108 Author chain I; PDBConstruct 200–333; UniProt 188–321 Author chain J; PDBConstruct 1–93; UniProt 1–108 Author chain J; PDBConstruct 200–333; UniProt 188–321 Author chain K; PDBConstruct 1–93; UniProt 1–108 Author chain K; PDBConstruct 200–333; UniProt 188–321 Author chain L; PDBConstruct 1–93; UniProt 1–108 Author chain L; PDBConstruct 200–333; UniProt 188–321

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.

SAXS scattering curve SAXS Profile

SAXS profile for 7xki

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7xki
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7xki
Deposition date deposition_date2022-04-19
Structure title titleHuman Cx36/GJD2 (N-terminal deletion BRIL-fused mutant) gap junction channel in soybean lipids (D6 symmetry)
Keywords keywordsconnexin 36, Gap Junction Channel, Cx36, GJD2, BRIL, MEMBRANE PROTEIN; MEMBRANE PROTEIN
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier45.92
Radius of gyration Rg (electron density) rg_electron46.58
Forward intensity I(0) i0636803000.00
Molecular weight molecular_weight231640.0 kDa
Excluded volume excluded_volume299240 ų
Envelope volume envelope_volume431880 ų
Hydration-shell volume shell_volume78192 ų
Envelope diameter envelope_diameter148.2
Shell Rg shell_rg50.08
Envelope Rg envelope_rg46.37
Shape Rg shape_rg46.59
Total Rg total_rg46.70
Total atoms total_atoms32760
Residues n_residues1992
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

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

Maximum dimension Dmax dmax153.3
Rg (real space) rg_real46.09
Rg uncertainty (real space) rg_real_error1.65
I(0) (real space) i0_real6.3680e+08
I(0) uncertainty (real space) i0_real_error1.2880e+07
Rg (reciprocal space) rg_reciprocal45.93
I(0) (reciprocal space) i0_reciprocal636700000.0000
Solution quality estimate total_estimate0.8223
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary49.6
Skewness Skewness skewness0.492
Kurtosis Kurtosis kurtosis-0.217
Angular range angular_range— – 0.1700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha92990000.0000
Real-space data points n_real_points35
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.731; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.495

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

8. Citations (1)

9. Files and Curves (10)