MolNFT v1 · #127454 · protein
Crystal structure of human chondroadherin
5MX1: “Crystal structure of human chondroadherin”. X-ray diffraction, 3 ligands (NI, PO4, CL), 2 pockets (best druggability 0.74). MolNFT v1 #127454 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5MX1
- Type
- protein
- Length
- 654 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chondroadherin
- UniProt
- O15335
- Ligands
- NI, PO4, CL
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chondroadherin | protein | 328 | 5% helix, 18% strand | O15335 |
| B | Chondroadherin | protein | 326 | 8% helix, 18% strand | O15335 |
Ligands and binding sites
- NI · Nickel (II) ion · metal · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 3 copies · chains A, B
- CL · Chloride ion · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1052 | 0.74 | 0.77 | 78 | PO4 |
| 2 | 148 | 0.51 | 0.79 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 1193 Ų buried · 31 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
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 O15335
- Elsewhere: RCSB PDB 5MX1 · PDBe 5MX1 · UniProt O15335
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