SMTL ID : 8rmf.1

Structure of the core ISC complex under turnover conditions (FDX2-bound in proximal conformation)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-1-mer

Ligands

2 x 8Q1: S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate(Covalent)

8Q1.1: 16 residues within 4Å: Chain A: R.19 Chain B: R.30, V.33, A.63, F.64, N.67, K.68, V.70, I.76, L.79, K.82, A.83, D.86 Chain C: D.36, S.37, L.38 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:V.33, B:F.64, B:L.79, B:A.83 Hydrogen bonds: B:N.67, B:N.67, B:K.68, B:K.68, B:K.68, C:S.37 Salt bridges: B:R.30, B:K.68 8Q1.5: 15 residues within 4Å: Chain F: R.19 Chain G: R.30, V.33, L.34, I.60, A.63, F.64, N.67, K.68, V.70, L.79, A.83, D.86 Chain I: S.37, L.38 11 PLIP interactions: 11 interactions with chain G Hydrophobic interactions: G:V.33, G:I.60, G:K.68, G:V.70, G:L.79 Hydrogen bonds: G:N.67, G:N.67, G:K.68, G:K.68, G:K.68 Salt bridges: G:R.30

2 x FE2: FE (II) ION(Non-covalent)

FE2.2: 6 residues within 4Å: Chain A: C.328 Chain D: C.37, D.39, C.63, H.105, C.106 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Metal complexes: D:D.39, D:C.63, D:H.105, A:C.328 FE2.4: 6 residues within 4Å: Chain F: C.328 Chain H: C.37, D.39, C.63, H.105, C.106 4 PLIP interactions: 3 interactions with chain H, 1 interactions with chain F Metal complexes: H:D.39, H:C.63, H:H.105, F:C.328

1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.3: 11 residues within 4Å: Chain E: L.29, G.41, C.43, E.44, A.45, L.47, A.48, C.49, S.50, C.52, C.89 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.43, E:C.49, E:C.52, E:C.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Steinhilper, R. et al., Two-stage binding of mitochondrial ferredoxin-2 to the core iron-sulfur cluster assembly complex. Nat Commun (2024)

Release Date

2024-12-18

Peptides

Isoform Mitochondrial of Cysteine desulfurase: AF
LYR motif-containing protein 4: BG
Acyl carrier protein: CI
Isoform 1 of Iron-sulfur cluster assembly enzyme ISCU: DH
Ferredoxin-2, mitochondrial: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
E

B
B

G
F

C
C

I
G

D
D

H
H

E
I

Isoform Mitochondrial of Cysteine desulfurase

LYR motif-containing protein 4

Acyl carrier protein

Isoform 1 of Iron-sulfur cluster assembly enzyme ISCU

Ferredoxin-2, mitochondrial

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