MolNFT v1 · #172258 · protein
Ompd-domain of human umps in complex with 6-aza-ump at 1.0 ångströms resolution
6ZX1 · Uridine 5'-monophosphate synthase: “Ompd-domain of human umps in complex with 6-aza-ump at 1.0 ångströms resolution”. X-ray diffraction, 3 ligands (PRO, UP6, SO4), 1 pocket (best druggability 0.53). MolNFT v1 #172258 on GenesisL1…
- PDB
- 6ZX1
- Type
- protein
- Length
- 256 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uridine 5'-monophosphate synthase
- EC
- 2.4.2.10, 4.1.1.23
- UniProt
- P11172
- Ligands
- PRO, UP6, SO4
- Pockets
- 1 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uridine 5'-monophosphate synthase (EC 2.4.2.10, 4.1.1.23) | protein | 256 | 45% helix, 17% strand | P11172 |
Ligands and binding sites
- PRO · Proline · ligand · 2 copies · chains A
- UP6 · 6-aza uridine 5'-monophosphate · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 171 | 0.53 | 0.79 | 26 | UP6 |
Modifications
Observed in the structure: 1 modified (oxidation).
Compared structures
- 6ZX1 · OMPD-domain of human UMPS in complex with 6-Aza-UMP at 1.0 Angstroms resolution · the same entry in another collection · chain A against A, TM-score 1.00
- P11172 · AlphaFold monomer V2.0 prediction for uridine 5'-monophosphate synthase (P11172) · a predicted model of the same protein · 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 P11172
- Elsewhere: RCSB PDB 6ZX1 · PDBe 6ZX1 · UniProt P11172
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