Research workbench
4.3A resolution structure of a mind-MINE(I24N) protein complex
Analyse 4.3A resolution structure of a mind-MINE(I24N) protein complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3R9J
- Type
- protein
- Length
- 640 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Septum site-determining protein mind; Cell division topological specificity factor
- UniProt
- P0AEZ3, P0A734
- Ligands
- ADP
- Pockets
- 3 · best druggability 0.88
Structure
x-ray diffraction · 3 distinct chains · 40% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Septum site-determining protein mind | protein | 250 | 39% helix, 18% strand | P0AEZ3 |
| B | Septum site-determining protein mind | protein | 250 | 39% helix, 18% strand | P0AEZ3 |
| C, D | Cell division topological specificity factor | protein | 70 | 43% helix, 19% strand | P0A734 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1095 | 0.88 | 0.90 | 118 | ADP |
| 2 | 1110 | 0.83 | 0.84 | 95 | empty |
| 3 | 69 | 0.31 | 0.74 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1768 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 875 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 690 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 688 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 3R9J · 4.3A resolution structure of a MinD-MinE(I24N) protein complex · the same entry in another collection · chain A against A, TM-score 1.00
- P0AEZ3 · AlphaFold monomer V2.0 prediction for septum site-determining protein mind (P0AEZ3) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P0A734 · AlphaFold monomer V2.0 prediction for cell division topological specificity factor… · a predicted model of the same protein · chain C against A, TM-score 0.63
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 P0AEZ3
- Every structure of UniProt P0A734
- Elsewhere: RCSB PDB 3R9J · PDBe 3R9J · UniProt P0AEZ3 · UniProt P0A734
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