MolNFT v1 · #135124 · protein
2.8 ångström crystal structure of the C-terminal dimerization domain of transcriptional regulator pdhr from escherichia COLI.
5TPM · Pyruvate dehydrogenase complex repressor: “2.8 ångström crystal structure of the C-terminal dimerization domain of transcriptional regulator pdhr from…”. X-ray diffraction, 6 pockets (best druggability 0.52). MolNFT v1 #135124 on…
- PDB
- 5TPM
- Type
- protein
- Length
- 588 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pyruvate dehydrogenase complex repressor
- UniProt
- P0ACM0
- Pockets
- 6 · best druggability 0.52
Structure
x-ray diffraction · 4 distinct chains · 87% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pyruvate dehydrogenase complex repressor | protein | 155 | 87% helix, 0% strand | P0ACM0 |
| B | Pyruvate dehydrogenase complex repressor | protein | 141 | 87% helix, 0% strand | P0ACM0 |
| C | Pyruvate dehydrogenase complex repressor | protein | 152 | 88% helix, 0% strand | P0ACM0 |
| D | Pyruvate dehydrogenase complex repressor | protein | 140 | 86% helix, 0% strand | P0ACM0 |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 245 | 0.52 | 0.75 | 31 | empty |
| 2 | 137 | 0.43 | 0.75 | 21 | empty |
| 3 | 121 | 0.41 | 0.75 | 15 | empty |
| 4 | 91 | 0.38 | 0.76 | 13 | empty |
| 5 | 100 | 0.36 | 0.75 | 15 | empty |
Interfaces
6 interfaces between chains.
- C–D · 838 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 809 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 237 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 229 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 215 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- P0ACM0 · AlphaFold monomer V2.0 prediction for pyruvate dehydrogenase complex repressor (P0ACM0) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P0ACM0
- Elsewhere: RCSB PDB 5TPM · PDBe 5TPM · UniProt P0ACM0
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