MolNFT v1 · #139942 · protein
Crystal structure of RIB7 mutant D33A from methanosarcina mazei
5XV2 · Conserved protein: “Crystal structure of RIB7 mutant D33A from methanosarcina mazei”. X-ray diffraction, 1 ligand (NAP), 2 pockets (best druggability 0.74). MolNFT v1 #139942 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5XV2
- Type
- protein
- Length
- 223 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Conserved protein
- UniProt
- Q8PYN5
- Ligands
- NAP
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Conserved protein | protein | 223 | 28% helix, 27% strand | Q8PYN5 |
Ligands and binding sites
- NAP · Nadp nicotinamide-adenine-dinucleotide phosphate · ligand · chains A
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 | 497 | 0.74 | 0.82 | 51 | NAP |
| 2 | 96 | 0.36 | 0.74 | 16 | empty |
Compared structures
- 5XV2 · Crystal structure of Rib7 mutant D33A from Methanosarcina mazei · 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 Q8PYN5
- Elsewhere: RCSB PDB 5XV2 · PDBe 5XV2 · UniProt Q8PYN5
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