Research workbench
Preserving metallic sites affected by radiation damage the CUT2 ccase in thermus thermophilus multicopper oxidase
Analyse Preserving metallic sites affected by radiation damage the CUT2 ccase in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5G3D
- Type
- protein
- Length
- 439 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Thermus thermophilus multicopper oxidase
- EC
- 1.10.3.2
- UniProt
- I7AL37
- Ligands
- CU, NA
- Pockets
- 5 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Thermus thermophilus multicopper oxidase (EC 1.10.3.2) | protein | 439 | 6% helix, 49% strand | I7AL37 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 3 copies · chains A
- NA · Sodium ion · metal · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 6 copies · chains A
- MRD · (4R)-2-methylpentane-2,4-diol · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 305 | 0.61 | 0.79 | 28 | MRD, MPD |
| 2 | 133 | 0.44 | 0.76 | 26 | MPD, MRD |
| 3 | 99 | 0.40 | 0.77 | 23 | empty |
| 4 | 60 | 0.36 | 0.78 | 11 | empty |
| 5 | 68 | 0.32 | 0.75 | 17 | empty |
Compared structures
- 5G3D · preserving Metallic Sites Affected by Radiation Damage the CuT2 cCase in Thermus… · 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
- Every structure of UniProt I7AL37
- Elsewhere: RCSB PDB 5G3D · PDBe 5G3D · UniProt I7AL37
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.