Research workbench
Structural insights into calcium bound S100P - V domain of the receptor for advanced glycation end products (rage) complex
Analyse Structural insights into calcium bound S100P - V domain of the receptor for… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2MJW
- Type
- protein
- Length
- 390 residues
- Chains
- 4
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Advanced glycosylation end product-specific receptor; Protein S100-P
- UniProt
- Q15109, P25815
- Pockets
- 4 · best druggability 0.63
Structure
solution nmr · 2 distinct chains · 29% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Advanced glycosylation end product-specific receptor | protein | 101 | 0% helix, 40% strand | Q15109 |
| B, D | Protein S100-P | protein | 94 | 60% helix, 2% strand | P25815 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 237 | 0.63 | 0.82 | 36 | empty |
| 2 | 218 | 0.60 | 0.81 | 35 | empty |
| 3 | 60 | 0.47 | 0.83 | 17 | empty |
| 4 | 60 | 0.47 | 0.84 | 17 | empty |
Interfaces
5 interfaces between chains.
- B–D · 1604 Ų buried · 16 hydrogen bonds · protein-protein
- D–C · 850 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 847 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 388 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 361 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2MJW · Structural Insights into Calcium Bound S100P - V Domain of the receptor for advanced… · the same entry in another collection · chain A against A, TM-score 1.00
- P25815 · AlphaFold monomer V2.0 prediction for protein S100-P (P25815) · a predicted model of the same protein · chain B against A, TM-score 0.92
- 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 0.68
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 P25815
- Elsewhere: RCSB PDB 2MJW · PDBe 2MJW · UniProt Q15109 · UniProt P25815
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