MolNFT v1 · #55279 · protein
Structure of a chimeric glutamate dehydrogenase
2YFH · Glutamate dehydrogenase, NAD-specific glutamate…: “Structure of a chimeric glutamate dehydrogenase”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #55279 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 2YFH
- Type
- protein
- Length
- 2,677 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate dehydrogenase, NAD-specific glutamate dehydrogenase, glutamate dehydrogenase
- EC
- 1.4.1.4, 1.4.1.3, 1.4.1.2
- UniProt
- E7GGS1, P00370
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamate dehydrogenase, NAD-specific glutamate dehydrogenase, glutamate dehydrogenase (EC 1.4.1.4, 1.4.1.3, 1.4.1.2) | protein | 444 | 46% helix, 15% strand | E7GGS1, P00370 |
| B, C, F | Glutamate dehydrogenase, NAD-specific glutamate dehydrogenase, glutamate dehydrogenase (EC 1.4.1.4, 1.4.1.3, 1.4.1.2) | protein | 447 | 47% helix, 16% strand | E7GGS1, P00370 |
| D | Glutamate dehydrogenase, NAD-specific glutamate dehydrogenase, glutamate dehydrogenase (EC 1.4.1.4, 1.4.1.3, 1.4.1.2) | protein | 444 | 46% helix, 15% strand | E7GGS1, P00370 |
| E | Glutamate dehydrogenase, NAD-specific glutamate dehydrogenase, glutamate dehydrogenase (EC 1.4.1.4, 1.4.1.3, 1.4.1.2) | protein | 448 | 47% helix, 16% strand | E7GGS1, P00370 |
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 | 228 | 0.84 | 0.97 | 26 | empty |
| 2 | 217 | 0.83 | 0.96 | 24 | empty |
| 3 | 206 | 0.83 | 0.97 | 25 | empty |
| 4 | 930 | 0.81 | 0.83 | 106 | empty |
| 5 | 776 | 0.79 | 0.83 | 78 | empty |
Interfaces
12 interfaces between chains.
- E–F · 1388 Ų buried · 26 hydrogen bonds · protein-protein
- A–D · 1359 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 1357 Ų buried · 25 hydrogen bonds · protein-protein
- C–E · 1186 Ų buried · 18 hydrogen bonds · protein-protein
- A–E · 1181 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
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 E7GGS1
- Every structure of UniProt P00370
- Elsewhere: RCSB PDB 2YFH · PDBe 2YFH · UniProt E7GGS1 · UniProt P00370
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