SMTL ID : 5ccr.1

Human Cyclophilin D Complexed with Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

K.1: 1 residues within 4Å: Ligands: PGE.5 No protein-ligand interaction detected (PLIP) K.2: 2 residues within 4Å: Ligands: PGE.6, PEG.8 No protein-ligand interaction detected (PLIP)

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

FMT.3: 5 residues within 4Å: Chain A: C.40, T.41, G.42, K.49, C.161 2 PLIP interactions: 2 interactions with chain A Water bridges: A:C.40, A:K.49

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

PG4.4: 3 residues within 4Å: Chain A: V.93, P.95, H.131 No protein-ligand interaction detected (PLIP)

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

PGE.5: 5 residues within 4Å: Chain A: P.58, S.59, W.121, K.148 Ligands: K.1 No protein-ligand interaction detected (PLIP) PGE.6: 4 residues within 4Å: Chain A: N.69, H.70 Ligands: K.2, PEG.8 No protein-ligand interaction detected (PLIP)

1 x 4ZT: ethyl N-[(4-aminobenzyl)carbamoyl]-L-methioninate(Non-covalent)

4ZT.7: 15 residues within 4Å: Chain A: R.55, F.60, M.61, Q.63, G.72, R.82, A.101, N.102, A.103, G.104, T.107, G.109, Q.111, F.113, H.126 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.60, A:A.101, A:F.113 Hydrogen bonds: A:R.55, A:Q.63, A:G.72, A:R.82, A:N.102, A:N.102 Water bridges: A:Q.111, A:Q.111 Salt bridges: A:R.55, A:H.126

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

PEG.8: 5 residues within 4Å: Chain A: G.50, H.70, K.155 Ligands: K.2, PGE.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.155 Water bridges: A:T.52

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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