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Structure of the FDX2-bound core ISC complex (distal conformation)

Electron Microscopy
2.52Å resolution
PDB entry 8rmd coloured by chain, front view.
PDB entry 8rmd coloured by chain, side view.
PDB entry 8rmd coloured by chain, top view.
Source organisms:
Assembly composition:
hetero nonamer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero nonamer
Accessible surface area: 58891.16 Å2
Buried surface area: 21285.57 Å2
Dissociation area: 496.17 Å2
Dissociation energy (ΔGdiss): -8.76 kcal/mol
Dissociation entropy (TΔSdiss): 11.68 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-282805

Macromolecules

Cysteine desulfurase
Chains: A, E
Length: 404 amino acids
Theoretical weight: 45.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9Y697 (Residues: 56-457; Coverage: 88%)
Gene names: HUSSY-08, NFS1, NIFS
Pfam: Aminotransferase class-V
Isoform Mitochondrial of Cysteine desulfurase in PDB entry 8rmd, assembly 1, front view.
Isoform Mitochondrial of Cysteine desulfurase in PDB entry 8rmd, assembly 1, side view.
Isoform Mitochondrial of Cysteine desulfurase in PDB entry 8rmd, assembly 1, top view.
PDBe-KB: UniProt Coverage View: Q9Y697  
140450100150200250300350400
 
100200300400
UniProt
Q9Y697
Chains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
Variants
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LYR motif-containing protein 4
Chains: B, F
Length: 115 amino acids
Theoretical weight: 13.5 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9HD34 (Residues: 1-91; Coverage: 100%)
Gene names: C6orf149, CGI-203, ISD11, LYRM4
Pfam: Complex 1 protein (LYR family)
LYR motif-containing protein 4 in PDB entry 8rmd, assembly 1, front view.
LYR motif-containing protein 4 in PDB entry 8rmd, assembly 1, side view.
LYR motif-containing protein 4 in PDB entry 8rmd, assembly 1, top view.
PDBe-KB: UniProt Coverage View: Q9HD34  
1115102030405060708090100110
 
50100
UniProt
Q9HD34
Chains
Secondary structure
Ligand binding sites
Interaction interfaces
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Acyl carrier protein
Chains: C, G
Length: 78 amino acids
Theoretical weight: 8.65 KDa
Source organism: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A6A8 (Residues: 1-78; Coverage: 100%)
Gene names: JW1080, acpP, b1094
Pfam: Phosphopantetheine attachment site
Acyl carrier protein in PDB entry 8rmd, assembly 1, front view.
Acyl carrier protein in PDB entry 8rmd, assembly 1, side view.
Acyl carrier protein in PDB entry 8rmd, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P0A6A8  
17810203040506070
 
204060MSTIEERVKKIIGEQLGVKQEEVTNNASFVEDLGADSLDTVELVMALEEEFDTEIPDEEAEKITTVQAAIDYINGHQA
UniProt
P0A6A8
Chains
Secondary structure
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Iron-sulfur cluster assembly enzyme ISCU
Chains: D, H
Length: 143 amino acids
Theoretical weight: 15.68 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9H1K1 (Residues: 35-167; Coverage: 80%)
Gene names: ISCU, NIFUN
Pfam: NifU-like N terminal domain
Isoform 1 of Iron-sulfur cluster assembly enzyme ISCU in PDB entry 8rmd, assembly 1, front view.
Isoform 1 of Iron-sulfur cluster assembly enzyme ISCU in PDB entry 8rmd, assembly 1, side view.
Isoform 1 of Iron-sulfur cluster assembly enzyme ISCU in PDB entry 8rmd, assembly 1, top view.
PDBe-KB: UniProt Coverage View: Q9H1K1  
114320406080100120140
 
50100
UniProt
Q9H1K1
Chains
Secondary structure
Ligand binding sites
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Sequence conservation
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Ferredoxin-2, mitochondrial
Chain: I
Length: 121 amino acids
Theoretical weight: 13.34 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6P4F2 (Residues: 66-183; Coverage: 65%)
Gene names: FDX1L, FDX2
Pfam: 2Fe-2S iron-sulfur cluster binding domain
Ferredoxin-2, mitochondrial in PDB entry 8rmd, assembly 1, front view.
Ferredoxin-2, mitochondrial in PDB entry 8rmd, assembly 1, side view.
Ferredoxin-2, mitochondrial in PDB entry 8rmd, assembly 1, top view.
PDBe-KB: UniProt Coverage View: Q6P4F2  
1121102030405060708090100110120
 
50100
UniProt
Q6P4F2
Chains
Secondary structure
Ligand binding sites
Interaction interfaces
Sequence conservation
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