Research workbench
Crystal structure of ethanolamine utilization protein eutl from leptotrichia buccalis C-1013-B
Analyse Crystal structure of ethanolamine utilization protein eutl from leptotrichia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3U27
- Type
- protein
- Length
- 1,306 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Microcompartments protein
- UniProt
- C7NCS6
- Ligands
- CA, NA
- Pockets
- 17 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, D, E, F | Microcompartments protein | protein | 218 | 38% helix, 27% strand | C7NCS6 |
| A, B | Microcompartments protein | protein | 217 | 38% helix, 28% strand | C7NCS6 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains C, B, F, A, E, D
- NA · Sodium ion · metal · 3 copies · chains C, F, A, E
- GOL · Glycerol · additive · 9 copies · chains C, A, D, E, B, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 400 | 0.63 | 0.78 | 51 | NA |
| 2 | 315 | 0.60 | 0.78 | 40 | empty |
| 3 | 176 | 0.55 | 0.80 | 22 | GOL |
| 4 | 173 | 0.52 | 0.79 | 23 | GOL |
| 5 | 172 | 0.52 | 0.79 | 20 | empty |
Interfaces
6 interfaces between chains.
- A–D · 1527 Ų buried · 17 hydrogen bonds · protein-protein
- C–B · 1523 Ų buried · 18 hydrogen bonds · protein-protein
- D–F · 1514 Ų buried · 18 hydrogen bonds · protein-protein
- A–F · 1499 Ų buried · 18 hydrogen bonds · protein-protein
- C–F · 576 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered).
Compared structures
- 3U27 · Crystal structure of ethanolamine utilization protein EutL from Leptotrichia buccalis… · the same entry in another collection · chain C against C, 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 C7NCS6
- Elsewhere: RCSB PDB 3U27 · PDBe 3U27 · UniProt C7NCS6
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