Cryo-EM structure of a respiratory complex I mutant lacking NDUFS4

Structure

electron microscopy · 41 distinct chains · 49% helix, 6% strand (DSSP).

Ligands and binding sites

• SF4 · Iron/sulfur cluster · ligand · 6 copies · chains A, C, B, I, K
• FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains A, H
• FMN · Flavin mononucleotide · ligand · chains B
• NDP · Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate · ligand · chains E
• ZMP · S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy) butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate · ligand · chains O, P
• ZN · Zinc ion · metal · chains M

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.

Interfaces

174 interfaces between chains.

• B–H · 3496 Ų buried · 35 hydrogen bonds · protein-protein
• G–Z · 2885 Ų buried · 33 hydrogen bonds · protein-protein
• C–G · 2849 Ų buried · 31 hydrogen bonds · protein-protein
• 1–3 · 2679 Ų buried · 6 hydrogen bonds · protein-protein
• 4–5 · 2404 Ų buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 10 disulfide, 2 covalent (disulfide, covalent ligand).

Compared structures

• 6RFS · Cryo-EM structure of a respiratory complex I mutant lacking NDUFS4 · 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 Q9UUU3
• Every structure of UniProt Q9UUU2
• Every structure of UniProt Q9UUU1
• Every structure of UniProt A0A1D8NC63
• Every structure of UniProt A0A371BY45
• Every structure of UniProt A0A371C5F3
• Every structure of UniProt Q9UUU0
• Every structure of UniProt Q9UUT9
• Every structure of UniProt Q9UUT8
• Every structure of UniProt A0A371CB65
• Every structure of UniProt Q9UUT7
• Every structure of UniProt Q9B6D4
• Every structure of UniProt A0A1H6Q8Z5
• Every structure of UniProt A0A1H6PXT9
• Every structure of UniProt A0A1D8N3C8
• Every structure of UniProt A0A1D8NG21
• Every structure of UniProt A0A1D8NDL1
• Every structure of UniProt Q6ZY23
• Every structure of UniProt A0A371C2D0
• Every structure of UniProt A0A1H6PPE5
• Every structure of UniProt A0A1D8NKB4
• Every structure of UniProt A0A1D8N3H5
• Every structure of UniProt A0A1D8ND94
• Every structure of UniProt A0A1D8NGI5
• Every structure of UniProt A0A371C0F2
• Every structure of UniProt A0A1D8N596
• Every structure of UniProt A0A1D8NFX6
• Every structure of UniProt A0A1H6PJS3
• Every structure of UniProt A0A1D8NJR0
• Every structure of UniProt A0A1D8N5V2
• Every structure of UniProt A0A1H6Q311
• Every structure of UniProt Q6ZY24
• Every structure of UniProt A0A371CFV9
• Every structure of UniProt S5U3V2
• Every structure of UniProt S5U4R9
• Every structure of UniProt S5TMS4
• Every structure of UniProt S5TMP9
• Every structure of UniProt S5TF58
• Every structure of UniProt Q9B6E9
• Every structure of UniProt A0A1H6PKH9
• Every structure of UniProt A0A1D8NNZ0
• Elsewhere: RCSB PDB 6RFS · PDBe 6RFS · UniProt Q9UUU3 · UniProt Q9UUU2 · UniProt Q9UUU1 · UniProt A0A1D8NC63 · UniProt A0A371BY45 · UniProt A0A371C5F3 · UniProt Q9UUU0 · UniProt Q9UUT9 · UniProt Q9UUT8 · UniProt A0A371CB65 · UniProt Q9UUT7 · UniProt Q9B6D4 · UniProt A0A1H6Q8Z5 · UniProt A0A1H6PXT9 · UniProt A0A1D8N3C8 · UniProt A0A1D8NG21 · UniProt A0A1D8NDL1 · UniProt Q6ZY23 · UniProt A0A371C2D0 · UniProt A0A1H6PPE5 · UniProt A0A1D8NKB4 · UniProt A0A1D8N3H5 · UniProt A0A1D8ND94 · UniProt A0A1D8NGI5 · UniProt A0A371C0F2 · UniProt A0A1D8N596 · UniProt A0A1D8NFX6 · UniProt A0A1H6PJS3 · UniProt A0A1D8NJR0 · UniProt A0A1D8N5V2 · UniProt A0A1H6Q311 · UniProt Q6ZY24 · UniProt A0A371CFV9 · UniProt S5U3V2 · UniProt S5U4R9 · UniProt S5TMS4 · UniProt S5TMP9 · UniProt S5TF58 · UniProt Q9B6E9 · UniProt A0A1H6PKH9 · UniProt A0A1D8NNZ0