Research workbench
Crystal structure of epec effector nleb in complex with fadd death domain
Analyse Crystal structure of epec effector nleb in complex with fadd death domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ACI
- Type
- protein
- Length
- 391 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- T3SS secreted effector nleb homolog; Fas-associated death domain protein
- UniProt
- B7UI21, Q13158
- Ligands
- UDP, MN
- Pockets
- 3 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | T3SS secreted effector nleb homolog | protein | 304 | 41% helix, 19% strand | B7UI21 |
| H | Fas-associated death domain protein | protein | 87 | 78% helix, 0% strand | Q13158 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 473 | 0.73 | 0.82 | 51 | UDP, MN |
| 2 | 219 | 0.60 | 0.80 | 38 | empty |
| 3 | 180 | 0.48 | 0.77 | 30 | empty |
Interfaces
1 interface between chains.
- A–H · 1302 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 6ACI · Crystal structure of EPEC effector NleB in complex with FADD death domain · the same entry in another collection · chain A against A, TM-score 1.00
- B7UI21 · AlphaFold monomer V2.0 prediction for protein-arginine N-acetylglucosaminyltransferase… · a predicted model of the same protein · chain A against A, TM-score 1.00
- Q13158 · AlphaFold monomer V2.0 prediction for fas-associated death domain protein (Q13158) · a predicted model of the same protein · chain H against A, TM-score 0.93
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 B7UI21
- Every structure of UniProt Q13158
- Elsewhere: RCSB PDB 6ACI · PDBe 6ACI · UniProt B7UI21 · UniProt Q13158
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.