Research workbench
Zinc and the iron donor frataxin regulate oligomerization of the scaffold protein to form new fe-S cluster assembly centers
Analyse Zinc and the iron donor frataxin regulate oligomerization of the scaffold… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TRE
- Type
- protein
- Length
- 6,312 residues
- Chains
- 48
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Iron sulfur cluster assembly protein 1, mitochondrial; Frataxin homolog, mitochondrial
- EC
- 1.16.3.1
- UniProt
- Q03020, Q07540
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 2 distinct chains · 27% helix, 12% 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 | Iron sulfur cluster assembly protein 1, mitochondrial | protein | 142 | 31% helix, 16% strand | Q03020 |
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X | Frataxin homolog, mitochondrial (EC 1.16.3.1) | protein | 121 | 22% helix, 7% strand | Q07540 |
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 | 874 | 0.89 | 0.92 | 116 | empty |
| 2 | 958 | 0.87 | 0.89 | 123 | empty |
| 3 | 724 | 0.85 | 0.88 | 82 | empty |
| 4 | 307 | 0.84 | 0.95 | 59 | empty |
| 5 | 363 | 0.84 | 0.93 | 63 | empty |
Interfaces
162 interfaces between chains.
- v–V · 1291 Ų buried · 16 hydrogen bonds · protein-protein
- u–U · 1254 Ų buried · 18 hydrogen bonds · protein-protein
- d–D · 1234 Ų buried · 12 hydrogen bonds · protein-protein
- t–T · 1231 Ų buried · 10 hydrogen bonds · protein-protein
- x–X · 1226 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 11 disulfide (disulfide).
Compared structures
- 5TRE · Zinc and the Iron Donor Frataxin Regulate Oligomerization of the Scaffold Protein to Form… · the same entry in another collection · chain e against e, 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 Q03020
- Every structure of UniProt Q07540
- Elsewhere: RCSB PDB 5TRE · PDBe 5TRE · UniProt Q03020 · UniProt Q07540
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