SMTL ID : 7c2b.1

Crystal structure of ferredoxin: thioredoxin reductase and thioredoxin f2 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 10 residues within 4Å: Chain A: V.38, C.54, C.73, C.75, M.78, C.84, H.85, C.86, L.88, F.89 5 PLIP interactions: 5 interactions with chain A, Metal complexes: A:C.54, A:C.73, A:C.75, A:C.84, A:C.86

14 x NO3: NITRATE ION(Non-functional Binders)

NO3.2: 5 residues within 4Å: Chain A: R.57 Chain B: N.79 Chain C: R.80, V.81 Ligands: NO3.4 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.79, A:R.57, A:R.57 NO3.3: 1 residues within 4Å: Chain A: R.23 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.23, A:R.23 NO3.4: 7 residues within 4Å: Chain A: R.57, W.71, H.85 Chain B: N.79 Chain C: V.81 Ligands: NO3.2, NO3.8 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.57, A:H.85, B:N.79 NO3.5: 6 residues within 4Å: Chain A: V.37, T.111, T.112, N.114 Chain C: W.38, K.43 No protein-ligand interaction detected (PLIP) NO3.6: 4 residues within 4Å: Chain A: D.31, G.33, V.34 Chain C: K.43 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.31 NO3.7: 5 residues within 4Å: Chain A: Q.68, G.69, F.70, V.76 Chain B: H.101 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.68 Water bridges: A:R.79 NO3.8: 4 residues within 4Å: Chain A: P.77, E.83 Chain B: N.79 Ligands: NO3.4 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:R.81, A:E.83, A:E.83 Hydrogen bonds: B:N.79 NO3.9: 5 residues within 4Å: Chain C: K.89, D.90, K.92, V.94 Ligands: NO3.10 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.90, C:K.92 NO3.10: 5 residues within 4Å: Chain C: K.89, V.94, K.95, A.112 Ligands: NO3.9 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:K.89, C:K.95, C:K.95 Water bridges: C:K.89, C:K.89 NO3.11: 8 residues within 4Å: Chain A: Y.49, H.58, Y.59, K.62 Chain C: C.66, N.67, Q.68, K.71 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:Y.49, A:K.62 Water bridges: A:Y.49, A:H.58, A:Y.59, C:C.66, C:N.67, C:Q.68 NO3.12: 5 residues within 4Å: Chain A: H.58, D.60 Chain C: K.71, K.75, R.80 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:K.71, C:R.80, C:R.80, A:H.58, A:D.60 NO3.13: 5 residues within 4Å: Chain C: D.33, Y.35, S.42, K.43, A.46 4 PLIP interactions: 4 interactions with chain C Water bridges: C:D.33, C:D.33, C:T.36, C:K.43 NO3.14: 4 residues within 4Å: Chain C: G.78, R.80, K.86, E.96 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.86, C:E.96 Water bridges: C:R.80 NO3.15: 2 residues within 4Å: Chain C: E.110, R.113 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.110, C:R.113

1 x MG: MAGNESIUM ION(Non-covalent)

MG.16: 1 residues within 4Å: Chain C: D.90 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Juniar, L. et al., Structural basis for thioredoxin isoform-based fine-tuning of ferredoxin-thioredoxin reductase activity. Protein Sci. (2020)

Release Date

2020-10-14

Peptides

Ferredoxin-thioredoxin reductase catalytic chain, chloroplastic: A
Ferredoxin-thioredoxin reductase variable chain, chloroplastic: B
Thioredoxin F2, chloroplastic: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Ferredoxin-thioredoxin reductase catalytic chain, chloroplastic

Ferredoxin-thioredoxin reductase variable chain, chloroplastic

Thioredoxin F2, chloroplastic

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