Research workbench
Gonadotropin-releasing hormone agonist
Analyse Gonadotropin-releasing hormone agonist in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4D5M
- Type
- protein
- Length
- 40 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Triptorelin
- Ligands
- NH2, PO4
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Triptorelin | protein | 10 | 30% helix, 0% strand | — |
Ligands and binding sites
- NH2 · Amino group · ion · 4 copies · chains A, B, C, D
- PO4 · Phosphate ion · ion · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
5 interfaces between chains.
- C–D · 180 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 174 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 174 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 174 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 169 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 d-amino, 4 modified (D-amino acid, cyclization).
Compared structures
- 4D5M · Gonadotropin-releasing hormone agonist · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 4D5M · PDBe 4D5M
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