Research workbench
Crystal structure of the CLR:RAMP2 extracellular domain heterodimer with bound adrenomedullin
Analyse Crystal structure of the CLR:RAMP2 extracellular domain heterodimer with bound… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4RWF
- Type
- protein
- Length
- 573 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Maltose transporter subunit, receptor activity-modifying protein 2, calcitonin…
- UniProt
- P0AEX9, O60895, Q16602, P35318
- Ligands
- GLC, NH2
- Pockets
- 5 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Maltose transporter subunit, receptor activity-modifying protein 2, calcitonin gene-related peptide type 1 receptor fusion protein | protein | 555 | 44% helix, 17% strand | P0AEX9, O60895, Q16602 |
| B | Adrenomedullin | protein | 18 | 22% helix, 6% strand | P35318 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
- NH2 · Amino group · ion · chains A, B
- EDO · 1,2-ethanediol · additive · 5 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 601 | 0.76 | 0.83 | 68 | EDO |
| 2 | 576 | 0.74 | 0.82 | 63 | GLC, EDO |
| 3 | 168 | 0.49 | 0.77 | 33 | empty |
| 4 | 68 | 0.41 | 0.80 | 16 | empty |
| 5 | 68 | 0.33 | 0.76 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1017 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 4RWF · Crystal structure of the CLR:RAMP2 extracellular domain heterodimer with bound… · the same entry in another collection · chain A against A, TM-score 1.00
- P35318 · AlphaFold monomer V2.0 prediction for pro-adrenomedullin (P35318) · a predicted model of the same protein · chain B against A, TM-score 0.31
- Q16602 · AlphaFold monomer V2.0 prediction for calcitonin gene-related peptide type 1 receptor… · a predicted model of the same protein · chain A against A, TM-score 0.20
- O60895 · AlphaFold monomer V2.0 prediction for receptor activity-modifying protein 2 (O60895) · a predicted model of the same protein · chain A against A, TM-score 0.14
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 P0AEX9
- Every structure of UniProt O60895
- Every structure of UniProt Q16602
- Every structure of UniProt P35318
- Elsewhere: RCSB PDB 4RWF · PDBe 4RWF · UniProt P0AEX9 · UniProt O60895 · UniProt Q16602 · UniProt P35318
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.