SMTL ID : 8rho.1

[2Fe:2S] ferredoxin FeSII from Azotobacter vinelandii, reduced form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

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

FES.1: 12 residues within 4Å: Chain A: F.40, E.41, C.42, Q.43, G.45, N.46, C.47, G.48, S.49, C.50, L.100, C.102 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.42, A:C.47, A:C.50, A:C.102 FES.8: 12 residues within 4Å: Chain B: F.40, E.41, C.42, Q.43, G.45, N.46, C.47, G.48, S.49, C.50, L.100, C.102 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.42, B:C.47, B:C.50, B:C.102

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: L.51, V.52, K.53, E.114, F.115, T.116, G.121 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Water bridges: B:R.92, A:G.117, A:G.121 Hydrogen bonds: A:L.51, A:T.116 EDO.4: 2 residues within 4Å: Chain A: C.102, Q.103 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.103, A:Q.103 EDO.6: 3 residues within 4Å: Chain A: G.29, Q.32, E.33 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.23, A:S.25 EDO.9: 7 residues within 4Å: Chain B: A.2, I.4, I.105, V.106, T.107, E.109, L.111 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.105, B:T.107, B:E.109 EDO.10: 1 residues within 4Å: Chain B: N.34 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.34

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.3: 7 residues within 4Å: Chain A: G.45, N.46, K.70, N.73, V.74, K.76, S.77 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.73

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 3 residues within 4Å: Chain A: K.76, S.77, G.79 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.79 PEG.7: 8 residues within 4Å: Chain A: A.2, A.19, V.20, A.21, K.23, V.106, T.107, D.108 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.2, A:V.106 Water bridges: A:G.22, A:G.22, A:D.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Franke, P. et al., Conformational protection of molybdenum nitrogenase by Shethna protein II. Nature (2025)

Release Date

2025-01-01

Peptides

Ferredoxin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ferredoxin

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