SMTL ID : 4xn2.1

Crystal Structure of Met260Ala mutant of E. coli Aminopeptidase N in complex with L-Leucine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.293, H.297, E.316, Y.377 Ligands: LEU.2 5 PLIP interactions: 1 Ligand-Ligand interactions, 4 interactions with chain A Metal complexes: LEU.2, A:H.293, A:H.297, A:E.316, A:E.316

1 x LEU: LEUCINE(Non-covalent)

LEU.2: 14 residues within 4Å: Chain A: Q.115, E.117, A.256, A.258, M.259, E.260, H.293, E.294, H.297, K.315, E.316, Y.372, Y.377 Ligands: ZN.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.256, A:Y.372 Hydrogen bonds: A:A.258, A:E.260, A:K.315 Water bridges: A:A.258 Salt bridges: A:H.293, A:H.297

11 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: S.328, D.329, G.331, R.333 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.329, A:R.333 Water bridges: A:D.329 NA.4: 2 residues within 4Å: Chain A: D.448 Ligands: GOL.15 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.448, A:D.448 NA.5: 3 residues within 4Å: Chain A: E.422, D.428, S.430 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.430, A:S.430 Water bridges: A:R.433 NA.6: 4 residues within 4Å: Chain A: R.40, S.44, N.81, L.82 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.40, A:S.44 Water bridges: A:N.81 NA.7: 1 residues within 4Å: Chain A: T.343 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.343 Water bridges: A:N.340, A:T.343, A:E.378 NA.8: 2 residues within 4Å: Chain A: E.103, E.367 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.367 Water bridges: A:E.119, A:N.369 NA.9: 3 residues within 4Å: Chain A: Q.15, I.16, L.134 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.15, A:I.16, A:L.134 NA.10: 6 residues within 4Å: Chain A: Y.181, L.182, E.260, G.301, N.302, K.315 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.302, A:K.315 NA.11: 5 residues within 4Å: Chain A: G.346, A.350, N.619, A.622, E.623 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.619 NA.12: 2 residues within 4Å: Chain A: R.289, N.340 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.340 Water bridges: A:R.289, A:D.323, A:D.323, A:D.323, A:Q.324, A:Q.324, A:N.336, A:N.340, A:N.340 NA.13: 3 residues within 4Å: Chain A: H.767, R.768, F.770 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.770, A:F.770

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.14: 6 residues within 4Å: Chain A: R.637, E.638, T.641, R.682, F.686, A.718 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.637, A:R.682 Water bridges: A:A.634, A:R.637, A:A.718 GOL.15: 6 residues within 4Å: Chain A: D.448, Q.523, Y.540, K.541, Q.546 Ligands: NA.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.523, A:S.543, A:Q.546, A:Q.546 Water bridges: A:D.448, A:K.541 GOL.16: 6 residues within 4Å: Chain A: A.256, G.257, K.270, Y.271, R.779, R.821 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.270, A:K.270, A:Y.271, A:R.779, A:R.779, A:R.821, A:R.821

2 x MLI: MALONATE ION(Non-functional Binders)

MLI.17: 4 residues within 4Å: Chain A: R.724, D.725, M.728, Q.749 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.749, A:S.752 Salt bridges: A:R.724 MLI.18: 6 residues within 4Å: Chain A: N.575, Q.583, P.584, L.585, E.635, A.639 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.585, A:E.635

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Addlagatta, A. et al., Crystal Structure of Met260Ala mutant of E. coli Aminopeptidase N in complex with L-Leucine. To Be Published

Release Date

2016-03-02

Peptides

Aminopeptidase N: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Aminopeptidase N

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