SMTL ID : 2gz5.1

Human Type 1 methionine aminopeptidase in complex with ovalicin at 1.1 Ang

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

3 x CO: COBALT (II) ION(Non-covalent)

CO.1: 7 residues within 4Å: Chain A: D.176, H.239, T.270, E.272, E.303 Ligands: CO.2, OVA.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.176, A:H.239, A:E.272, A:E.303, H2O.9 CO.2: 4 residues within 4Å: Chain A: D.165, D.176, E.303 Ligands: CO.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.165, A:D.176, A:E.303, H2O.9, H2O.9 CO.3: 5 residues within 4Å: Chain A: E.64, Y.131, Y.132, H.246 Ligands: GOL.7 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.64, A:Y.131, A:H.246, H2O.12, H2O.12

1 x K: POTASSIUM ION(Non-covalent)

K.4: 5 residues within 4Å: Chain A: S.141, V.142, N.143, V.145, S.299 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:N.143, A:V.145, A:S.299, H2O.5, H2O.12

1 x OVA: 3,4-DIHYDROXY-2-METHOXY-4-METHYL-3-[2-METHYL-3-(3-METHYL-BUT-2-ENYL) -OXIRANYL]-CYCLOHEXANONE(Covalent)

OVA.5: 13 residues within 4Å: Chain A: P.128, Y.131, F.134, C.139, H.148, Y.236, C.237, H.239, F.245, E.272, M.274 Ligands: CO.1, GOL.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.128, A:Y.131, A:Y.131, A:F.134 Hydrogen bonds: A:C.237

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 9 residues within 4Å: Chain A: T.108, T.140, S.141, V.142, V.145, I.150, P.151, D.152, R.154 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.108, A:T.108, A:T.140, A:V.142 Water bridges: A:R.154 GOL.7: 5 residues within 4Å: Chain A: Y.131, Y.132, H.246 Ligands: CO.3, OVA.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Addlagatta, A. et al., Structure of the angiogenesis inhibitor ovalicin bound to its noncognate target, human Type 1 methionine aminopeptidase. Protein Sci. (2006)

Release Date

2006-05-23

Peptides

Methionine aminopeptidase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methionine aminopeptidase 1

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