SMTL ID : 6rsi.1

cytochrome c co-crystallized with 25 eq. sulfonato-calix[8]arene - structure 0

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

monomer

Ligands

1 x HEC: HEME C(Covalent)

HEC.1: 26 residues within 4Å: Chain A: R.18, C.19, C.22, H.23, V.33, G.34, P.35, L.37, I.40, S.45, G.46, Y.51, Y.53, T.54, N.57, W.64, M.69, Y.72, L.73, T.83, K.84, M.85, A.86, F.87, L.99, L.103 25 PLIP interactions: 24 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:V.33, A:L.37, A:L.37, A:I.40, A:W.64, A:Y.72, A:L.73, A:M.85, A:F.87, A:F.87, A:F.87, A:F.87, A:L.99, A:L.103 Hydrogen bonds: A:G.46, A:T.54, A:N.57, A:T.83, A:T.83, A:K.84 Water bridges: A:R.43, A:Q.47, A:Y.51 Metal complexes: A:H.23, H2O.2

3 x EVB: sulfonato-calix[8]arene(Non-covalent)

EVB.2: 10 residues within 4Å: Chain A: K.16, T.17, L.20, Q.21, T.24, E.26, G.29, P.30, H.31, K.32 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.20, A:L.20, A:L.20, A:L.20, A:L.20, A:Q.21, A:T.24, A:P.30, A:P.30, A:P.30 Hydrogen bonds: A:L.20, A:Q.21, A:K.32, A:K.32 Water bridges: A:E.26, A:K.32 Salt bridges: A:K.16 EVB.3: 12 residues within 4Å: Chain A: A.5, G.6, A.8, K.9, A.12, T.101, Y.102, K.104, K.105, A.106 Ligands: GOL.5, GOL.6 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:A.5, A:K.9, A:A.12, A:T.101, A:Y.102, A:K.105, A:K.105 Hydrogen bonds: A:A.8 Water bridges: A:G.6, A:G.6, A:A.8, A:Y.102, A:K.104 Salt bridges: A:K.9, A:K.104, A:K.105, A:K.105 pi-Stacking: A:Y.102 EVB.4: 14 residues within 4Å: Chain A: R.18, T.74, N.75, K.77, K.78, G.82, M.85, A.86, F.87, G.88, G.89, L.90, K.91, K.92 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:K.77, A:K.77, A:K.78, A:K.78, A:K.91, A:K.91 Hydrogen bonds: A:N.75, A:G.82, A:G.88, A:K.91 Water bridges: A:K.77, A:M.85, A:M.85, A:K.91, A:K.91, A:K.92, A:K.92 Salt bridges: A:R.18, A:R.18, A:K.77, A:K.78, A:K.78, A:K.91, A:K.92 pi-Cation interactions: A:K.91

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 1 residues within 4Å: Ligands: EVB.3 No protein-ligand interaction detected (PLIP) GOL.6: 1 residues within 4Å: Ligands: EVB.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Engilberge, S. et al., Tuning Protein Frameworks via Auxiliary Supramolecular Interactions. Acs Nano (2019)

Release Date

2019-09-18

Peptides

Cytochrome c iso-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome c iso-1

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