SMTL ID : 2b3h.1

Crystal structure of Human Methionine Aminopeptidase Type I with a third cobalt in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

4 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, CL.4 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.1 CO.2: 5 residues within 4Å: Chain A: D.165, D.176, E.303 Ligands: CO.1, CL.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.165, A:D.176, A:E.303, H2O.1, H2O.1 CO.5: 4 residues within 4Å: Chain A: H.148 Ligands: CL.4, CO.6, GOL.8 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:H.148, H2O.17, H2O.17, H2O.17, H2O.17 CO.6: 4 residues within 4Å: Chain A: H.148 Ligands: CL.4, CO.5, GOL.8 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.148, H2O.17, H2O.17, H2O.17

1 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: S.141, V.142, N.143, V.145, S.299 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.141, A:N.143, A:V.145, A:S.299, H2O.1

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 8 residues within 4Å: Chain A: D.176, H.239, H.246 Ligands: CO.1, CO.2, CO.5, CO.6, GOL.8 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 10 residues within 4Å: Chain A: L.32, T.108, T.140, S.141, V.142, V.145, I.150, P.151, D.152, R.154 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.108, A:T.108, A:T.140, A:V.142 Water bridges: A:I.150, A:R.154 GOL.8: 11 residues within 4Å: Chain A: P.128, Y.131, F.134, C.139, H.148, F.245, H.246, W.289 Ligands: CL.4, CO.5, CO.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Addlagatta, A. et al., Structural Basis for the Functional Differences between Type I and Type II Human Methionine Aminopeptidases(,). Biochemistry (2005)

Release Date

2005-11-22

Peptides

Methionine aminopeptidase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methionine aminopeptidase 1

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