Research workbench
Crystal structure of inorganic pyrophosphatase from medicago truncatula (I23 crystal form)
Analyse Crystal structure of inorganic pyrophosphatase from medicago truncatula (I23… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MT2
- Type
- protein
- Length
- 709 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Soluble inorganic pyrophosphatase
- UniProt
- A0A072TMB0
- Pockets
- 12 · best druggability 0.57
Structure
x-ray diffraction · 4 distinct chains · 26% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Soluble inorganic pyrophosphatase | protein | 180 | 24% helix, 29% strand | A0A072TMB0 |
| B | Soluble inorganic pyrophosphatase | protein | 181 | 25% helix, 29% strand | A0A072TMB0 |
| C | Soluble inorganic pyrophosphatase | protein | 173 | 28% helix, 28% strand | A0A072TMB0 |
| D | Soluble inorganic pyrophosphatase | protein | 175 | 25% helix, 27% strand | A0A072TMB0 |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 206 | 0.57 | 0.80 | 36 | empty |
| 2 | 52 | 0.56 | 0.89 | 15 | empty |
| 3 | 162 | 0.55 | 0.81 | 22 | empty |
| 4 | 131 | 0.54 | 0.82 | 21 | empty |
| 5 | 158 | 0.53 | 0.80 | 24 | empty |
Interfaces
3 interfaces between chains.
- A–C · 687 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 520 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 283 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6MT2 · Crystal structure of Inorganic Pyrophosphatase from Medicago truncatula (I23 crystal form) · 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 A0A072TMB0
- Elsewhere: RCSB PDB 6MT2 · PDBe 6MT2 · UniProt A0A072TMB0
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