Research workbench
RAGEC2-S100A13 tetrameric complex
Analyse RAGEC2-S100A13 tetrameric complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2LE9
- Type
- protein
- Length
- 380 residues
- Chains
- 4
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Advanced glycosylation end product-specific receptor; Protein S100-A13
- UniProt
- Q15109, Q99584
- Pockets
- 5 · best druggability 0.72
Structure
solution nmr · 2 distinct chains · 26% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Advanced glycosylation end product-specific receptor | protein | 93 | 0% helix, 40% strand | Q15109 |
| B, C | Protein S100-A13 | protein | 97 | 52% helix, 4% strand | Q99584 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 119 | 0.72 | 0.92 | 20 | empty |
| 2 | 85 | 0.69 | 0.93 | 19 | empty |
| 3 | 515 | 0.66 | 0.78 | 48 | empty |
| 4 | 127 | 0.52 | 0.81 | 24 | empty |
| 5 | 108 | 0.45 | 0.78 | 14 | empty |
Interfaces
4 interfaces between chains.
- B–C · 1805 Ų buried · 21 hydrogen bonds · protein-protein
- C–D · 627 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 406 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 33 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2LE9 · RAGEC2-S100A13 tetrameric complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q15109 · AlphaFold monomer V2.0 prediction for advanced glycosylation end product-specific… · a predicted model of the same protein · chain A against A, TM-score 0.82
- Q99584 · AlphaFold monomer V2.0 prediction for protein S100-A13 (Q99584) · a predicted model of the same protein · chain B against A, TM-score 0.74
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 Q15109
- Every structure of UniProt Q99584
- Elsewhere: RCSB PDB 2LE9 · PDBe 2LE9 · UniProt Q15109 · UniProt Q99584
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