MolNFT v1 · #100542 · protein
Methanopyrus kandleri CSM3 crystal structure
4N0L · Predicted component of a thermophile-specific DNA repair…: “Methanopyrus kandleri CSM3 crystal structure”. X-ray diffraction, 1 ligand (ZN), 2 pockets (best druggability 0.63). MolNFT v1 #100542 on GenesisL1: 3D structure, binding…
- PDB
- 4N0L
- Type
- protein
- Length
- 669 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Predicted component of a thermophile-specific DNA repair system, contains a ramp domain
- UniProt
- Q8TVS2
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Predicted component of a thermophile-specific DNA repair system, contains a ramp domain | protein | 335 | 37% helix, 20% strand | Q8TVS2 |
| B | Predicted component of a thermophile-specific DNA repair system, contains a ramp domain | protein | 334 | 35% helix, 19% strand | Q8TVS2 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 201 | 0.63 | 0.83 | 26 | empty |
| 2 | 85 | 0.30 | 0.73 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 618 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 4N0L · Methanopyrus kandleri Csm3 crystal structure · 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 Q8TVS2
- Elsewhere: RCSB PDB 4N0L · PDBe 4N0L · UniProt Q8TVS2
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