SMTL ID : 5auk.1

Crystal structure of the Ga-substituted Ferredoxin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

1 x GAK: [2Ga-2S] cluster(Non-covalent)

GAK.1: 10 residues within 4Å: Chain A: Y.37, S.38, C.39, R.40, G.42, A.43, C.44, C.47, L.75, C.77 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.39, A:C.44, A:C.47, A:C.77

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: K.50, T.52 Ligands: BEN.7 3 PLIP interactions: 3 interactions with chain A Water bridges: A:I.51, A:A.71 Salt bridges: A:K.50 SO4.3: 5 residues within 4Å: Chain A: S.15, I.16, E.17, A.31 Ligands: BEN.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.17, A:E.17

6 x BEN: BENZAMIDINE(Non-functional Binders)

BEN.4: 3 residues within 4Å: Chain A: D.11 Ligands: BEN.5, BEN.6 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.11 Hydrogen bonds: A:D.11 BEN.5: 8 residues within 4Å: Chain A: T.9, G.12, E.13, S.14, G.32, L.33 Ligands: BEN.4, BEN.8 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.33 BEN.6: 4 residues within 4Å: Chain A: P.10, D.11, G.12 Ligands: BEN.4 No protein-ligand interaction detected (PLIP) BEN.7: 9 residues within 4Å: Chain A: I.51, T.52, A.53, G.54, I.69, E.70, A.71, G.72 Ligands: SO4.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.52, A:G.54 BEN.8: 8 residues within 4Å: Chain A: S.14, S.15, I.16, A.31, G.32, L.33 Ligands: SO4.3, BEN.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.33 Hydrogen bonds: A:S.14, A:A.31 BEN.9: 3 residues within 4Å: Chain A: P.10, D.11, H.90 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.10, A:P.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mutoh, R. et al., X-ray Structure and Nuclear Magnetic Resonance Analysis of the Interaction Sites of the Ga-Substituted Cyanobacterial Ferredoxin. Biochemistry (2015)

Release Date

2015-09-23

Peptides

Ferredoxin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ferredoxin-1

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