SMTL ID : 5ccq.1

Human Cyclophilin D Complexed with Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)

K.1: 1 residues within 4Å: Ligands: PGE.5 No protein-ligand interaction detected (PLIP) K.2: 4 residues within 4Å: Chain A: Y.6, D.159, C.160 Ligands: FMT.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.159, A:C.160, H2O.5

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 7 residues within 4Å: Chain A: C.39, T.40, G.41, K.48, D.159, C.160 Ligands: K.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.39

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 3 residues within 4Å: Chain A: V.92, P.94, H.130 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 6 residues within 4Å: Chain A: I.56, P.57, S.58, F.59, W.120 Ligands: K.1 No protein-ligand interaction detected (PLIP)

1 x 502: ethyl N-{[(2-aminopyridin-4-yl)methyl]carbamoyl}glycinate(Non-covalent)

502.6: 12 residues within 4Å: Chain A: R.54, F.59, M.60, Q.62, G.71, T.72, G.73, A.100, N.101, Q.110, F.112, H.125 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.59, A:F.112 Hydrogen bonds: A:Q.62, A:T.72, A:N.101, A:N.101, A:N.101 Water bridges: A:Q.110 Salt bridges: A:R.54, A:H.125

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gibson, R.P. et al., Human Cyclophilin D Complexed with Inhibitor. To Be Published

Release Date

2016-07-20

Peptides

Peptidyl-prolyl cis-trans isomerase F, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-prolyl cis-trans isomerase F, mitochondrial

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