SMTL ID : 4ywy.2 (2 other biounits)

Crystal Structure of double mutant Y115E Y117E human Glutaminyl Cyclase in complex with inhibitor PBD-150

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.159, E.202, W.329, H.330 Ligands: PBD.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.159, A:D.159, A:E.202, A:E.202, A:H.330

1 x PBD: 1-(3,4-dimethoxyphenyl)-3-[3-(1H-imidazol-1-yl)propyl]thiourea(Non-covalent)

PBD.2: 16 residues within 4Å: Chain A: D.159, E.201, E.202, W.207, D.248, L.249, Y.299, V.302, I.303, Q.304, S.323, F.325, W.329, H.330 Ligands: ZN.1, EDO.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.325 Hydrogen bonds: A:F.325 Water bridges: A:Y.299, A:V.302 pi-Stacking: A:F.325

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain A: T.126, P.129, H.134, Q.194, M.223, H.228, Q.237 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.134, A:Q.237 Water bridges: A:Q.194, A:Q.194 EDO.4: 3 residues within 4Å: Chain A: Q.44, P.45, I.47 No protein-ligand interaction detected (PLIP) EDO.5: 5 residues within 4Å: Chain A: W.207, W.329, H.330 Ligands: PBD.2, EDO.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.330 Water bridges: A:K.144 EDO.6: 5 residues within 4Å: Chain A: E.76, Y.78, F.146, H.148, V.153 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.146 Water bridges: A:Y.78, A:F.146 EDO.7: 4 residues within 4Å: Chain A: K.40, N.41, N.263, R.266 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.40, A:R.266 Water bridges: A:N.41, A:P.262, A:N.263 EDO.8: 5 residues within 4Å: Chain A: N.128, A.131, L.181, D.190, L.191 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.190, A:D.190, A:L.191 EDO.9: 4 residues within 4Å: Chain A: K.144, L.205, W.207 Ligands: EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.144, A:L.205, A:W.207

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

SO4.10: 2 residues within 4Å: Chain A: R.217, R.312 10 PLIP interactions: 10 interactions with chain A Water bridges: A:R.217, A:R.217, A:R.217, A:R.312, A:R.312, A:R.312, A:R.312, A:R.312 Salt bridges: A:R.217, A:R.312 SO4.11: 5 residues within 4Å: Chain A: L.238, H.239, R.313, G.314, V.315 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.313 Water bridges: A:S.236 Salt bridges: A:K.40, A:H.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

DiPisa, F. et al., The soluble Y115E-Y117E variant of human glutaminyl cyclase is a valid target for X-ray and NMR screening of inhibitors against Alzheimer disease. Acta Crystallogr.,Sect.F (2015)

Release Date

2015-08-05

Peptides

Glutaminyl-peptide cyclotransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glutaminyl-peptide cyclotransferase

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