Research workbench
Human CX31.3/GJC3 connexin hemichannel in the absence of calcium
Analyse Human CX31.3/GJC3 connexin hemichannel in the absence of calcium in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6L3T
- Type
- protein
- Length
- 1,206 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gap junction gamma-3 protein
- UniProt
- Q8NFK1
- Ligands
- LMN
- Pockets
- 20 · best druggability 0.61
Structure
electron microscopy · 1 distinct chain · 69% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Gap junction gamma-3 protein | protein | 201 | 69% helix, 6% strand | Q8NFK1 |
Ligands and binding sites
- LMN · Lauryl Maltose Neopentyl Glycol · ligand · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 357 | 0.61 | 0.77 | 55 | empty |
| 2 | 132 | 0.56 | 0.82 | 20 | empty |
| 3 | 213 | 0.55 | 0.78 | 29 | empty |
| 4 | 136 | 0.54 | 0.80 | 20 | empty |
| 5 | 130 | 0.53 | 0.80 | 19 | empty |
Interfaces
6 interfaces between chains.
- A–F · 1251 Ų buried · 5 hydrogen bonds · protein-protein
- D–E · 1245 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 1244 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 1241 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 1239 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 disulfide (disulfide).
Compared structures
- 6L3T · Human Cx31.3/GJC3 connexin hemichannel in the absence of calcium · the same entry in another collection · chain F against F, TM-score 1.00
- Q8NFK1 · AlphaFold monomer V2.0 prediction for gap junction gamma-3 protein (Q8NFK1) · a predicted model of the same protein · chain E against A, TM-score 0.91
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 Q8NFK1
- Elsewhere: RCSB PDB 6L3T · PDBe 6L3T · UniProt Q8NFK1
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