Research workbench
Mouse tdh in the apo form
Analyse Mouse tdh in the apo form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4YRA
- Type
- protein
- Length
- 3,506 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-threonine 3-dehydrogenase, mitochondrial
- EC
- 1.1.1.103
- UniProt
- Q8K3F7
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 12 distinct chains · 43% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 292 | 42% helix, 17% strand | Q8K3F7 |
| B | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 294 | 42% helix, 17% strand | Q8K3F7 |
| C | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 293 | 44% helix, 17% strand | Q8K3F7 |
| D | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 292 | 42% helix, 17% strand | Q8K3F7 |
| E | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 291 | 43% helix, 19% strand | Q8K3F7 |
| F | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 287 | 44% helix, 17% strand | Q8K3F7 |
| G | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 294 | 43% helix, 18% strand | Q8K3F7 |
| H | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 295 | 44% helix, 17% strand | Q8K3F7 |
| I | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 291 | 43% helix, 18% strand | Q8K3F7 |
| J | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 292 | 41% helix, 18% strand | Q8K3F7 |
| K | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 286 | 44% helix, 17% strand | Q8K3F7 |
| L | L-threonine 3-dehydrogenase, mitochondrial (EC 1.1.1.103) | protein | 299 | 42% helix, 16% strand | Q8K3F7 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1154 | 0.79 | 0.80 | 78 | empty |
| 2 | 1137 | 0.78 | 0.80 | 83 | empty |
| 3 | 949 | 0.77 | 0.80 | 80 | empty |
| 4 | 933 | 0.76 | 0.79 | 73 | empty |
| 5 | 1141 | 0.73 | 0.76 | 89 | empty |
Interfaces
27 interfaces between chains.
- G–K · 1279 Ų buried · 13 hydrogen bonds · protein-protein
- C–E · 1195 Ų buried · 12 hydrogen bonds · protein-protein
- I–J · 1162 Ų buried · 12 hydrogen bonds · protein-protein
- A–H · 1124 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 1120 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 4YRA · mouse TDH in the apo form · the same entry in another collection · chain L against L, 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 Q8K3F7
- Elsewhere: RCSB PDB 4YRA · PDBe 4YRA · UniProt Q8K3F7
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