SMTL ID : 8gsj.1

APC-Asef tripeptide inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x K8C: 2-methylsulfanylpyrimidine-4-carbaldehyde(Non-covalent)

K8C.1: 6 residues within 4Å: Chain A: R.147, W.151, N.192 Ligands: GLU.2, NAL.3, GOL.7 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:N.192, E.2 pi-Stacking: A:W.151

1 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.2: 7 residues within 4Å: Chain A: F.108, G.109, K.114, N.148, W.151 Ligands: K8C.1, NAL.3 3 PLIP interactions: 3 interactions with chain A, Hydrophobic interactions: A:F.108 Hydrogen bonds: A:G.109 Salt bridges: A:K.114

1 x NAL: BETA-(2-NAPHTHYL)-ALANINE(Non-covalent)

NAL.3: 8 residues within 4Å: Chain A: T.104, F.108, R.147, N.148 Ligands: K8C.1, GLU.2, LEU.4, GOL.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.147, A:N.148, A:N.148

1 x LEU: LEUCINE(Non-covalent)

LEU.4: 5 residues within 4Å: Chain A: N.105, F.108 Ligands: NAL.3, GJZ.5, GOL.6 1 PLIP interactions: 1 interactions with chain A, Hydrophobic interactions: A:F.108

1 x GJZ: (1R,2S)-2-phenylcyclopropanamine(Non-covalent)

GJZ.5: 8 residues within 4Å: Chain A: F.56, M.101, T.104, N.105, V.141, S.144 Ligands: LEU.4, GOL.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.56, A:M.101, A:T.104, A:V.141 Hydrogen bonds: A:N.105

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: Q.140, S.144, R.147 Ligands: NAL.3, LEU.4, GJZ.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:S.144, A:R.147, A:R.147, L.4 Water bridges: A:Q.140 GOL.7: 3 residues within 4Å: Chain A: W.191, N.192 Ligands: K8C.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.192 Water bridges: A:W.191, A:N.239 GOL.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.9: 4 residues within 4Å: Chain A: R.12, W.19, A.72, E.75 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.68, A:A.72

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

SO4.10: 2 residues within 4Å: Chain A: K.53, F.56 No protein-ligand interaction detected (PLIP) SO4.11: 1 residues within 4Å: Chain A: K.314 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.314

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J. et al., APC-Asef tripeptide inhibitor. To Be Published

Release Date

2023-12-27

Peptides

Adenomatous polyposis coli protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Adenomatous polyposis coli protein