MolNFT v1 · #125267 · protein
Crystal structure of negative elongation factor subcomplex nelf-ac
5L3X · Negative elongation factor a: “Crystal structure of negative elongation factor subcomplex nelf-ac”. X-ray diffraction, 1 ligand (CL), 11 pockets (best druggability 0.80). MolNFT v1 #125267 on GenesisL1: 3D structure, binding sites…
- PDB
- 5L3X
- Type
- protein
- Length
- 566 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Negative elongation factor a; Negative elongation factor C/D
- UniProt
- Q9H3P2, Q8IXH7
- Ligands
- CL
- Pockets
- 11 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 65% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Negative elongation factor a | protein | 177 | 61% helix, 1% strand | Q9H3P2 |
| B | Negative elongation factor C/D | protein | 389 | 67% helix, 3% strand | Q8IXH7 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 865 | 0.80 | 0.83 | 86 | empty |
| 2 | 307 | 0.65 | 0.81 | 32 | empty |
| 3 | 335 | 0.62 | 0.79 | 27 | empty |
| 4 | 84 | 0.52 | 0.84 | 16 | empty |
| 5 | 161 | 0.47 | 0.76 | 34 | CL |
Interfaces
1 interface between chains.
- A–B · 4038 Ų buried · 36 hydrogen bonds · protein-protein
Compared structures
- 5L3X · Crystal structure of negative elongation factor subcomplex NELF-AC · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H3P2 · AlphaFold monomer V2.0 prediction for negative elongation factor a (Q9H3P2) · a predicted model of the same protein · chain A against A, TM-score 0.98
- Q8IXH7 · AlphaFold monomer V2.0 prediction for negative elongation factor C/D (Q8IXH7) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 Q9H3P2
- Every structure of UniProt Q8IXH7
- Elsewhere: RCSB PDB 5L3X · PDBe 5L3X · UniProt Q9H3P2 · UniProt Q8IXH7
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