MolNFT v1 · #186604 · protein
Complex III2 from candida albicans, inhibitor free, rieske head domain in intermediate position
7RJC · Ubiquinol--cytochrome-C reductase subunit: “Complex III2 from candida albicans, inhibitor free, rieske head domain in intermediate position”. Electron microscopy, 4 ligands (HEM, U10, HEC), 20 pockets (best druggability 0.82).…
- PDB
- 7RJC
- Type
- protein
- Length
- 1,907 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquinol--cytochrome-C reductase subunit; Cytochrome B; Ubiquinol--cytochrome-C…
- EC
- 7.1.1.8
- UniProt
- A0A1D8PP59, P0C8L0, A0A1D8PHA3, Q5ABS1, A0A1D8PHA2, A0A1D8PJT8, A0A1D8PLP3, P83782, A0A1D8PJX3
- Ligands
- HEM, U10, HEC, FES
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 10 distinct chains · 52% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquinol--cytochrome-C reductase subunit | protein | 416 | 47% helix, 16% strand | A0A1D8PP59 |
| K | Cytochrome B | protein | 383 | 72% helix, 2% strand | P0C8L0 |
| D | Ubiquinol--cytochrome-C reductase catalytic subunit | protein | 244 | 41% helix, 8% strand | A0A1D8PHA3 |
| G | Cytochrome B-C1 complex subunit 7 | protein | 122 | 68% helix, 1% strand | Q5ABS1 |
| F | Ubiquinol--cytochrome-C reductase subunit 8 | protein | 85 | 55% helix, 7% strand | A0A1D8PHA2 |
| H | Ubiquinol--cytochrome-C reductase subunit 6 | protein | 72 | 75% helix, 0% strand | A0A1D8PJT8 |
| I | Ubiquinol--cytochrome-C reductase subunit 9 | protein | 39 | 82% helix, 0% strand | A0A1D8PLP3 |
| B | Cytochrome B-C1 complex subunit 2, mitochondrial | protein | 364 | 41% helix, 19% strand | P83782 |
| M | Cytochrome B-C1 complex subunit rieske, mitochondrial (EC 7.1.1.8) | protein | 50 | 68% helix, 0% strand | A0A1D8PJX3 |
| E | Cytochrome B-C1 complex subunit rieske, mitochondrial (EC 7.1.1.8) | protein | 132 | 15% helix, 21% strand | A0A1D8PJX3 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains K
- U10 · Ubiquinone-10 · ligand · 2 copies · chains K
- HEC · Heme C · ligand · chains D
- FES · Fe2/s2 (inorganic) cluster · ligand · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 564 | 0.82 | 0.87 | 65 | HEM |
| 2 | 459 | 0.77 | 0.85 | 50 | HEM, U10 |
| 3 | 890 | 0.77 | 0.80 | 86 | HEC |
| 4 | 751 | 0.75 | 0.79 | 74 | empty |
| 5 | 1072 | 0.73 | 0.76 | 113 | empty |
Interfaces
19 interfaces between chains.
- K–G · 1837 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1796 Ų buried · 13 hydrogen bonds · protein-protein
- K–D · 1748 Ų buried · 16 hydrogen bonds · protein-protein
- K–F · 1376 Ų buried · 5 hydrogen bonds · protein-protein
- D–H · 1137 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 cofactor, 1 covalent, 1 disulfide (heme c attachment, heme attachment, covalent ligand, disulfide).
Compared structures
- 7RJC · Complex III2 from Candida albicans, inhibitor free, Rieske head domain in intermediate… · the same entry in another collection · chain E against E, TM-score 1.00
- P0C8L0 · AlphaFold monomer V2.0 prediction for cytochrome B (P0C8L0) · a predicted model of the same protein · chain K against A, TM-score 0.99
- P83782 · AlphaFold monomer V2.0 prediction for cytochrome B-C1 complex subunit 2, mitochondrial… · a predicted model of the same protein · chain B against A, TM-score 0.98
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 A0A1D8PP59
- Every structure of UniProt P0C8L0
- Every structure of UniProt A0A1D8PHA3
- Every structure of UniProt Q5ABS1
- Every structure of UniProt A0A1D8PHA2
- Every structure of UniProt A0A1D8PJT8
- Every structure of UniProt A0A1D8PLP3
- Every structure of UniProt P83782
- Every structure of UniProt A0A1D8PJX3
- Elsewhere: RCSB PDB 7RJC · PDBe 7RJC · UniProt A0A1D8PP59 · UniProt P0C8L0 · UniProt A0A1D8PHA3 · UniProt Q5ABS1 · UniProt A0A1D8PHA2 · UniProt A0A1D8PJT8 · UniProt A0A1D8PLP3 · UniProt P83782 · UniProt A0A1D8PJX3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.