SMTL ID : 6qeg.1

CRYSTAL STRUCTURE OF HUMAN METHIONINE AMINOPEPTIDASE-2 IN COMPLEX WITH AN INHIBITOR 2-Oxo-1-phenyl-pyrrolidine-3-carboxylic acid (2-thiophen-2-yl-ethyl)-amide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: R.74, H.354, R.368 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.74, A:R.74, A:R.368, A:R.368

1 x K4K: (3~{S})-3-oxidanyl-2-oxidanylidene-1-phenyl-~{N}-(2-thiophen-2-ylethyl)pyrrolidine-3-carboxamide(Non-covalent)

K4K.2: 18 residues within 4Å: Chain A: F.113, A.124, H.125, D.145, D.156, L.222, N.223, H.225, I.232, H.233, E.258, F.260, Y.338, L.341, Q.351, E.353 Ligands: MN.3, MN.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.113, A:A.124, A:L.222, A:I.232, A:F.260, A:L.341 Hydrogen bonds: A:H.125, A:Q.351 pi-Stacking: A:H.233, A:H.233, A:Y.338

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 7 residues within 4Å: Chain A: D.156, H.225, A.256, E.258, E.353 Ligands: K4K.2, MN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.156, A:H.225, A:E.258, A:E.353 MN.4: 7 residues within 4Å: Chain A: F.113, D.145, D.156, Q.351, E.353 Ligands: K4K.2, MN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.145, A:D.145, A:D.156, A:E.353

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heinrich, T. et al., Discovery and Structure-Based Optimization of Next-Generation Reversible Methionine Aminopeptidase-2 (MetAP-2) Inhibitors. J.Med.Chem. (2019)

Release Date

2019-05-01

Peptides

Methionine aminopeptidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methionine aminopeptidase 2

Related Entries With Identical Sequence