Research workbench
Structure of 5'-deoxy-5'-methylthioadenosine phosphorylase homologue from sulfolobus tokodaii
Analyse Structure of 5'-deoxy-5'-methylthioadenosine phosphorylase homologue from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1V4N
- Type
- protein
- Length
- 802 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 271AA long hypothetical 5'-methylthioadenosine phosphorylase
- EC
- 2.4.2.28
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 271AA long hypothetical 5'-methylthioadenosine phosphorylase (EC 2.4.2.28) | protein | 266 | 30% helix, 24% strand | — |
| B | 271AA long hypothetical 5'-methylthioadenosine phosphorylase (EC 2.4.2.28) | protein | 269 | 30% helix, 23% strand | — |
| C | 271AA long hypothetical 5'-methylthioadenosine phosphorylase (EC 2.4.2.28) | protein | 267 | 31% helix, 22% strand | — |
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 281 | 0.76 | 0.88 | 37 | empty |
| 2 | 293 | 0.76 | 0.88 | 40 | empty |
| 3 | 310 | 0.75 | 0.87 | 37 | empty |
| 4 | 97 | 0.39 | 0.76 | 23 | empty |
| 5 | 88 | 0.38 | 0.77 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1282 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 1278 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 1251 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide (disulfide).
Compared structures
- 1V4N · Structure of 5'-deoxy-5'-methylthioadenosine phosphorylase homologue from Sulfolobus… · 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
- Elsewhere: RCSB PDB 1V4N · PDBe 1V4N
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.