MolNFT v1 · #62465 · protein
Crystal structure of a putative ribose operon repressor from burkholderia thailandensis
3EGC: “Crystal structure of a putative ribose operon repressor from burkholderia thailandensis”. X-ray diffraction, 20 pockets (best druggability 0.70). MolNFT v1 #62465 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3EGC
- Type
- protein
- Length
- 1,568 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative ribose operon repressor
- UniProt
- Q2T0D1
- Pockets
- 20 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, E | Putative ribose operon repressor | protein | 261 | 43% helix, 20% strand | Q2T0D1 |
| D, F | Putative ribose operon repressor | protein | 262 | 42% helix, 20% strand | Q2T0D1 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 351 | 0.70 | 0.83 | 30 | empty |
| 2 | 187 | 0.60 | 0.82 | 22 | empty |
| 3 | 201 | 0.60 | 0.82 | 25 | empty |
| 4 | 218 | 0.60 | 0.81 | 25 | empty |
| 5 | 221 | 0.60 | 0.81 | 25 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1588 Ų buried · 26 hydrogen bonds · protein-protein
- C–D · 1572 Ų buried · 25 hydrogen bonds · protein-protein
- E–F · 1553 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 786 Ų buried · 12 hydrogen bonds · protein-protein
- A–E · 634 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3EGC · Crystal structure of a putative ribose operon repressor from Burkholderia thailandensis · the same entry in another collection · chain D against D, 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 Q2T0D1
- Elsewhere: RCSB PDB 3EGC · PDBe 3EGC · UniProt Q2T0D1
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