MolNFT v1 · #147741 · protein
Crystal structure of RRP1 from chaetomium thermophilum in space group P6322
6EMG · G0S4M2: “Crystal structure of RRP1 from chaetomium thermophilum in space group P6322”. X-ray diffraction, 1 ligand (PO4), 5 pockets (best druggability 0.65). MolNFT v1 #147741 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6EMG
- Type
- protein
- Length
- 458 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- G0S4M2
- UniProt
- G0S4M2
- Ligands
- PO4
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 69% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | G0S4M2 | protein | 232 | 70% helix, 4% strand | G0S4M2 |
| B | G0S4M2 | protein | 226 | 68% helix, 4% strand | G0S4M2 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 4 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 7 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 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 | 523 | 0.65 | 0.77 | 50 | PO4 |
| 2 | 240 | 0.59 | 0.80 | 31 | empty |
| 3 | 72 | 0.41 | 0.80 | 13 | empty |
| 4 | 111 | 0.38 | 0.75 | 25 | empty |
| 5 | 56 | 0.32 | 0.76 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 843 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 6EMG · Crystal structure of Rrp1 from Chaetomium thermophilum in space group P6322 · 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 G0S4M2
- Elsewhere: RCSB PDB 6EMG · PDBe 6EMG · UniProt G0S4M2
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