Research workbench
Neuronal synaptic fusion complex
Analyse Neuronal synaptic fusion complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1SFC
- Type
- protein
- Length
- 867 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (synaptobrevin 2); Protein (syntaxin 1A); Protein (snap-25B)
- UniProt
- P63045, P32851, P60881
- Ligands
- SR
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 12 distinct chains · 91% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (synaptobrevin 2) | protein | 69 | 90% helix, 0% strand | P63045 |
| B | Protein (syntaxin 1A) | protein | 72 | 92% helix, 0% strand | P32851 |
| C | Protein (snap-25B) | protein | 77 | 96% helix, 0% strand | P60881 |
| D | Protein (snap-25B) | protein | 74 | 82% helix, 0% strand | P60881 |
| E | Protein (synaptobrevin 2) | protein | 69 | 94% helix, 0% strand | P63045 |
| F | Protein (syntaxin 1A) | protein | 73 | 95% helix, 0% strand | P32851 |
| G | Protein (snap-25B) | protein | 72 | 89% helix, 0% strand | P60881 |
| H | Protein (snap-25B) | protein | 72 | 85% helix, 0% strand | P60881 |
| I | Protein (synaptobrevin 2) | protein | 69 | 90% helix, 0% strand | P63045 |
| J | Protein (syntaxin 1A) | protein | 74 | 96% helix, 0% strand | P32851 |
| K | Protein (snap-25B) | protein | 73 | 97% helix, 0% strand | P60881 |
| L | Protein (snap-25B) | protein | 73 | 86% helix, 0% strand | P60881 |
Ligands and binding sites
- SR · Strontium ion · metal · 13 copies · chains A, B, I, J, C, D, F, G, K
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 7 copies · chains A, I, J, B, C, E, F, G, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1189 | 0.77 | 0.80 | 94 | MPD |
| 2 | 478 | 0.73 | 0.82 | 50 | MPD |
| 3 | 70 | 0.69 | 0.95 | 15 | empty |
| 4 | 75 | 0.67 | 0.93 | 16 | empty |
| 5 | 107 | 0.66 | 0.90 | 17 | empty |
Interfaces
29 interfaces between chains.
- B–C · 1850 Ų buried · 21 hydrogen bonds · protein-protein
- J–K · 1814 Ų buried · 19 hydrogen bonds · protein-protein
- E–F · 1804 Ų buried · 16 hydrogen bonds · protein-protein
- F–G · 1785 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1770 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 1SFC · Neuronal synaptic fusion complex · 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 P63045
- Every structure of UniProt P32851
- Every structure of UniProt P60881
- Elsewhere: RCSB PDB 1SFC · PDBe 1SFC · UniProt P63045 · UniProt P32851 · UniProt P60881
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