Research workbench
Iron storage and electron transport
Analyse Iron storage and electron transport in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1BFR
- Type
- protein
- Length
- 3,792 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacterioferritin
- UniProt
- P0ABD3
- Ligands
- HEM, MN
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 77% 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, O, P, Q, R, S, T, U, V, W, X | Bacterioferritin | protein | 158 | 77% helix, 0% strand | P0ABD3 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 12 copies · chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X
- MN · Manganese (II) ion · metal · 48 copies · chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 254 | 0.76 | 0.89 | 32 | HEM |
| 2 | 255 | 0.75 | 0.88 | 34 | HEM |
| 3 | 260 | 0.75 | 0.88 | 34 | HEM |
| 4 | 253 | 0.75 | 0.88 | 32 | HEM |
| 5 | 252 | 0.74 | 0.88 | 30 | HEM |
Interfaces
72 interfaces between chains.
- Q–R · 983 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 982 Ų buried · 15 hydrogen bonds · protein-protein
- G–H · 981 Ų buried · 15 hydrogen bonds · protein-protein
- M–N · 980 Ų buried · 15 hydrogen bonds · protein-protein
- O–P · 979 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 1BFR · Iron storage and electron transport · the same entry in another collection · chain H against H, 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 P0ABD3
- Elsewhere: RCSB PDB 1BFR · PDBe 1BFR · UniProt P0ABD3
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