Research workbench
Structure of the mostonano fusion protein
Analyse Structure of the mostonano fusion protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YT3
- Type
- protein
- Length
- 619 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Molybdenum storage protein subunit alpha; THIOREDOXIN,MOLYBDENUM storage protein subunit…
- UniProt
- P84308, A0A0U0X1R7, P84253
- Ligands
- ATP, MG
- Pockets
- 6 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Molybdenum storage protein subunit alpha | protein | 243 | 43% helix, 16% strand | P84308 |
| B | THIOREDOXIN,MOLYBDENUM storage protein subunit beta | protein | 376 | 42% helix, 18% strand | A0A0U0X1R7, P84253 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 271 | 0.78 | 0.90 | 38 | ATP, MG |
| 2 | 363 | 0.65 | 0.80 | 44 | ATP |
| 3 | 221 | 0.55 | 0.78 | 36 | empty |
| 4 | 133 | 0.51 | 0.80 | 16 | empty |
| 5 | 152 | 0.41 | 0.74 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 2362 Ų buried · 29 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6YT3 · Structure of the MoStoNano fusion protein · the same entry in another collection · chain A against A, TM-score 1.00
- P84308 · AlphaFold monomer V2.0 prediction for molybdenum storage protein subunit alpha (P84308) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P84253 · AlphaFold monomer V2.0 prediction for molybdenum storage protein subunit beta (P84253) · a predicted model of the same protein · chain B against A, TM-score 0.70
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 P84308
- Every structure of UniProt A0A0U0X1R7
- Every structure of UniProt P84253
- Elsewhere: RCSB PDB 6YT3 · PDBe 6YT3 · UniProt P84308 · UniProt A0A0U0X1R7 · UniProt P84253
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