SMTL ID : 6qej.1

CRYSTAL STRUCTURE OF HUMAN METHIONINE AMINOPEPTIDASE-2 IN COMPLEX WITH AN INHIBITOR Thiophene-2-sulfonic acid (4-fluoro-benzyl)-(4H-[1,2,4]triazol-3-ylmethyl)-amide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: M.78, F.159, T.160, D.371, Y.372 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.371

1 x HZT: ~{N}-[(4-fluorophenyl)methyl]-~{N}-(1~{H}-1,2,4-triazol-5-ylmethyl)thiophene-2-sulfonamide(Non-covalent)

HZT.2: 18 residues within 4Å: Chain A: F.113, P.114, H.125, D.145, D.156, N.223, G.224, H.225, I.232, H.233, T.237, E.258, H.276, A.308, Y.338, E.353 Ligands: MN.4, MN.5 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.113, A:H.225, A:I.232, A:I.232 Water bridges: A:Q.351, A:Q.351, A:Q.351, A:Q.351 Salt bridges: A:E.258 pi-Stacking: A:H.225, A:Y.338 pi-Cation interactions: A:H.125

1 x TBU: TERTIARY-BUTYL ALCOHOL(Non-functional Binders)

TBU.3: 2 residues within 4Å: Chain A: P.83, Y.138 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.138

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

MN.4: 7 residues within 4Å: Chain A: D.156, H.225, A.256, E.258, E.353 Ligands: HZT.2, MN.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.156, A:H.225, A:E.258, A:E.353 MN.5: 6 residues within 4Å: Chain A: F.113, D.145, D.156, E.353 Ligands: HZT.2, MN.4 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

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