Research workbench
Structure of full length unliganded cody from bacillus subtilis
Analyse Structure of full length unliganded cody from bacillus subtilis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LOO
- Type
- protein
- Length
- 3,598 residues
- Chains
- 14
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GTP-sensing transcriptional pleiotropic repressor cody
- UniProt
- P39779
- Pockets
- 20 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N | GTP-sensing transcriptional pleiotropic repressor cody | protein | 257 | 37% helix, 15% strand | P39779 |
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 | 726 | 0.86 | 0.89 | 71 | empty |
| 2 | 704 | 0.84 | 0.88 | 86 | empty |
| 3 | 312 | 0.83 | 0.93 | 40 | empty |
| 4 | 422 | 0.83 | 0.91 | 54 | empty |
| 5 | 625 | 0.80 | 0.85 | 76 | empty |
Interfaces
25 interfaces between chains.
- B–C · 1573 Ų buried · 17 hydrogen bonds · protein-protein
- F–G · 1535 Ų buried · 18 hydrogen bonds · protein-protein
- J–K · 1499 Ų buried · 10 hydrogen bonds · protein-protein
- I–L · 1497 Ų buried · 13 hydrogen bonds · protein-protein
- E–H · 1493 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5LOO · Structure of full length unliganded CodY from Bacillus subtilis · the same entry in another collection · chain K against K, 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 P39779
- Elsewhere: RCSB PDB 5LOO · PDBe 5LOO · UniProt P39779
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