Research workbench
Sheep connexin-46 at 2.5 ångströms resolution, lipid class 1
Analyse Sheep connexin-46 at 2.5 ångströms resolution, lipid class 1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JMD
- Type
- protein
- Length
- 2,316 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gap junction alpha-3 protein
- UniProt
- Q9TU17
- Ligands
- MC3
- Pockets
- 20 · best druggability 0.61
Structure
electron microscopy · 1 distinct chain · 70% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Gap junction alpha-3 protein | protein | 193 | 70% helix, 5% strand | Q9TU17 |
Ligands and binding sites
- MC3 · 1,2-dimyristoyl-rac-glycero-3-phosphocholine · ligand · 132 copies · chains A, B, C, D, E, F, G, H, I, J, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 429 | 0.61 | 0.76 | 41 | empty |
| 2 | 378 | 0.60 | 0.76 | 38 | empty |
| 3 | 346 | 0.59 | 0.76 | 34 | empty |
| 4 | 318 | 0.59 | 0.77 | 30 | empty |
| 5 | 315 | 0.59 | 0.77 | 30 | empty |
Interfaces
24 interfaces between chains.
- C–D · 1319 Ų buried · 17 hydrogen bonds · protein-protein
- G–H · 1319 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1319 Ų buried · 17 hydrogen bonds · protein-protein
- G–L · 1319 Ų buried · 17 hydrogen bonds · protein-protein
- I–J · 1318 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 36 disulfide (disulfide).
Compared structures
- 7JMD · Sheep Connexin-46 at 2.5 angstroms resolution, Lipid Class 1 · the same entry in another collection · chain L against L, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9TU17
- Elsewhere: RCSB PDB 7JMD · PDBe 7JMD · UniProt Q9TU17
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