SMTL ID : 4dhv.1

Crystal structure of the Pyrococcus furiosus ferredoxin D14C variant containing the heterometallic [AgFe3S4] cluster

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x 0KA: SILVER/IRON/SULFUR CLUSTER(Non-covalent)

0KA.1: 13 residues within 4Å: Chain A: V.6, C.11, I.12, G.13, C.14, A.15, I.16, C.17, A.33, C.56, P.57, V.58, I.61 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:C.11, A:C.14, A:C.17, A:C.56, H2O.2, H2O.2 0KA.4: 15 residues within 4Å: Chain B: V.6, C.11, I.12, G.13, C.14, A.15, I.16, C.17, M.27, A.33, C.56, P.57, V.58, A.60, I.61 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.11, B:C.14, B:C.17, B:C.56

4 x NCO: COBALT HEXAMMINE(III)(Non-covalent)

NCO.2: 7 residues within 4Å: Chain A: E.41, D.42, E.43 Chain B: S.19, L.20, C.48, E.51 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:L.20, B:L.20, A:E.41, A:D.42, A:E.43 Water bridges: A:D.42 NCO.3: 5 residues within 4Å: Chain A: L.20, C.48, E.51 Chain B: D.42, E.44 11 PLIP interactions: 5 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:D.42, B:E.44, B:E.44, A:E.51 Water bridges: B:D.42, B:D.42, A:E.51, A:E.51, A:E.51, A:E.51, A:E.51 NCO.5: 4 residues within 4Å: Chain B: E.26, M.27, N.28, D.29 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:M.27, B:M.27, B:D.29 Water bridges: B:D.29, B:Q.34 NCO.6: 6 residues within 4Å: Chain B: M.53, E.54, A.55, C.56, P.57, S.59 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:C.56, B:S.59, B:S.59, B:S.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martic, M. et al., Heterometallic [AgFe(3)S (4)] ferredoxin variants: synthesis, characterization, and the first crystal structure of an engineered heterometallic iron-sulfur protein. J.Biol.Inorg.Chem. (2013)

Release Date

2013-01-16

Peptides

Ferredoxin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Ferredoxin

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