MolNFT v1 · #125557 · protein
In situ atomic-resolution structure of the baseplate antenna complex in chlorobaculum tepidum obtained combining solid-state NMR spectroscopy, cryo electron microscopy and polarization spectroscopy
5LCB · Bacteriochlorophyll C-binding protein: “In situ atomic-resolution structure of the baseplate antenna complex in chlorobaculum tepidum obtained…”. Electron microscopy; solid-state nmr, 1 ligand (BCL), 8 pockets (best druggability…
- PDB
- 5LCB
- Type
- protein
- Length
- 826 residues
- Chains
- 14
- Method
- electron microscopy; solid-state nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacteriochlorophyll C-binding protein
- UniProt
- P0A314
- Ligands
- BCL
- Pockets
- 8 · best druggability 0.77
Structure
electron microscopy; solid-state nmr · 1 distinct chain · 63% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N | Bacteriochlorophyll C-binding protein | protein | 59 | 63% helix, 0% strand | P0A314 |
Ligands and binding sites
- BCL · Bacteriochlorophyll A · ligand · 14 copies · chains A, B, E, J, M, H, C, G, N, D, F, I, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 959 | 0.77 | 0.79 | 77 | BCL |
| 2 | 469 | 0.61 | 0.75 | 40 | empty |
| 3 | 481 | 0.60 | 0.74 | 40 | empty |
| 4 | 334 | 0.58 | 0.76 | 27 | empty |
| 5 | 161 | 0.51 | 0.78 | 18 | empty |
Interfaces
34 interfaces between chains.
- B–J · 560 Ų buried · 3 hydrogen bonds · protein-protein
- A–M · 556 Ų buried · 2 hydrogen bonds · protein-protein
- D–F · 548 Ų buried · 3 hydrogen bonds · protein-protein
- C–G · 546 Ų buried · 2 hydrogen bonds · protein-protein
- L–N · 536 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 5LCB · In situ atomic-resolution structure of the baseplate antenna complex in Chlorobaculum… · 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 P0A314
- Elsewhere: RCSB PDB 5LCB · PDBe 5LCB · UniProt P0A314
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.