SMTL ID : 1lan.1

LEUCINE AMINOPEPTIDASE COMPLEX WITH L-LEUCINAL

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

18 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.255, K.262, D.332, E.334 Ligands: ZN.2, LEU.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.255, A:D.332, A:D.332, A:E.334, LEU.4 ZN.2: 6 residues within 4Å: Chain A: K.250, D.255, D.273, E.334 Ligands: ZN.1, LEU.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.255, A:D.273, A:E.334, LEU.4 ZN.3: 6 residues within 4Å: Chain A: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:L.170, A:M.171, A:T.173, A:R.271, H2O.3 ZN.8: 6 residues within 4Å: Chain B: D.255, K.262, D.332, E.334 Ligands: ZN.9, LEU.11 5 PLIP interactions: 1 Ligand-Ligand interactions, 4 interactions with chain B Metal complexes: LEU.11, B:D.255, B:D.332, B:D.332, B:E.334 ZN.9: 6 residues within 4Å: Chain B: K.250, D.255, D.273, E.334 Ligands: ZN.8, LEU.11 4 PLIP interactions: 1 Ligand-Ligand interactions, 3 interactions with chain B Metal complexes: LEU.11, B:D.255, B:D.273, B:E.334 ZN.10: 6 residues within 4Å: Chain B: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:L.170, B:M.171, B:T.173, B:R.271, H2O.18 ZN.15: 6 residues within 4Å: Chain C: D.255, K.262, D.332, E.334 Ligands: ZN.16, LEU.18 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:D.255, C:D.332, C:D.332, C:E.334, LEU.18 ZN.16: 6 residues within 4Å: Chain C: K.250, D.255, D.273, E.334 Ligands: ZN.15, LEU.18 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:D.255, C:D.273, C:E.334, LEU.18 ZN.17: 6 residues within 4Å: Chain C: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:L.170, C:M.171, C:T.173, C:R.271, H2O.32 ZN.22: 6 residues within 4Å: Chain D: D.255, K.262, D.332, E.334 Ligands: ZN.23, LEU.25 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.255, D:D.332, D:D.332, D:E.334 ZN.23: 6 residues within 4Å: Chain D: K.250, D.255, D.273, E.334 Ligands: ZN.22, LEU.25 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.255, D:D.273, D:E.334 ZN.24: 6 residues within 4Å: Chain D: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:L.170, D:M.171, D:T.173, D:R.271, H2O.47 ZN.29: 6 residues within 4Å: Chain E: D.255, K.262, D.332, E.334 Ligands: ZN.30, LEU.32 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Ligand interactions Metal complexes: E:D.255, E:D.332, E:D.332, E:E.334, LEU.32 ZN.30: 6 residues within 4Å: Chain E: K.250, D.255, D.273, E.334 Ligands: ZN.29, LEU.32 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Ligand interactions Metal complexes: E:D.255, E:D.273, E:E.334, LEU.32 ZN.31: 6 residues within 4Å: Chain E: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:L.170, E:M.171, E:T.173, E:R.271, H2O.62 ZN.36: 6 residues within 4Å: Chain F: D.255, K.262, D.332, E.334 Ligands: ZN.37, LEU.39 5 PLIP interactions: 1 Ligand-Ligand interactions, 4 interactions with chain F Metal complexes: LEU.39, F:D.255, F:D.332, F:D.332, F:E.334 ZN.37: 6 residues within 4Å: Chain F: K.250, D.255, D.273, E.334 Ligands: ZN.36, LEU.39 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Ligand interactions Metal complexes: F:D.255, F:D.273, F:E.334, LEU.39 ZN.38: 6 residues within 4Å: Chain F: L.170, M.171, T.173, M.178, R.271, M.274 5 PLIP interactions: 4 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:L.170, F:M.171, F:T.173, F:R.271, H2O.77

6 x LEU: LEUCINE(Non-covalent)

LEU.4: 13 residues within 4Å: Chain A: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.1, ZN.2 4 PLIP interactions: 4 interactions with chain A, Hydrophobic interactions: A:A.451 Hydrogen bonds: A:K.250 Salt bridges: A:K.250, A:K.262 LEU.11: 13 residues within 4Å: Chain B: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.8, ZN.9 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.451 Hydrogen bonds: B:K.250 Salt bridges: B:K.250, B:K.262 LEU.18: 13 residues within 4Å: Chain C: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.15, ZN.16 4 PLIP interactions: 4 interactions with chain C, Hydrophobic interactions: C:A.451 Hydrogen bonds: C:K.250 Salt bridges: C:K.250, C:K.262 LEU.25: 13 residues within 4Å: Chain D: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.22, ZN.23 6 PLIP interactions: 6 interactions with chain D, Hydrophobic interactions: D:A.451 Hydrogen bonds: D:K.250, D:K.250, D:D.332 Salt bridges: D:K.250, D:K.262 LEU.32: 13 residues within 4Å: Chain E: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.29, ZN.30 4 PLIP interactions: 4 interactions with chain E, Hydrophobic interactions: E:A.451 Hydrogen bonds: E:K.250 Salt bridges: E:K.250, E:K.262 LEU.39: 13 residues within 4Å: Chain F: K.250, D.255, K.262, M.270, D.273, D.332, E.334, T.359, L.360, G.362, A.451 Ligands: ZN.36, ZN.37 4 PLIP interactions: 4 interactions with chain F, Hydrophobic interactions: F:A.451 Hydrogen bonds: F:K.250 Salt bridges: F:K.250, F:K.262

18 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.5: 7 residues within 4Å: Chain A: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.6: 7 residues within 4Å: Chain A: L.46, K.50, T.51, R.52 Chain D: Q.99, D.102, E.104 Ligand excluded by PLIP MRD.7: 7 residues within 4Å: Chain A: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP MRD.12: 7 residues within 4Å: Chain B: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.13: 7 residues within 4Å: Chain B: L.46, K.50, T.51, R.52 Chain F: Q.99, D.102, E.104 Ligand excluded by PLIP MRD.14: 7 residues within 4Å: Chain B: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP MRD.19: 7 residues within 4Å: Chain C: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.20: 7 residues within 4Å: Chain C: L.46, K.50, T.51, R.52 Chain E: Q.99, D.102, E.104 Ligand excluded by PLIP MRD.21: 7 residues within 4Å: Chain C: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP MRD.26: 7 residues within 4Å: Chain D: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.27: 7 residues within 4Å: Chain A: Q.99, D.102, E.104 Chain D: L.46, K.50, T.51, R.52 Ligand excluded by PLIP MRD.28: 7 residues within 4Å: Chain D: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP MRD.33: 7 residues within 4Å: Chain E: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.34: 7 residues within 4Å: Chain C: Q.99, D.102, E.104 Chain E: L.46, K.50, T.51, R.52 Ligand excluded by PLIP MRD.35: 7 residues within 4Å: Chain E: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP MRD.40: 7 residues within 4Å: Chain F: A.48, G.49, W.82, E.87, N.88, A.91, P.461 Ligand excluded by PLIP MRD.41: 7 residues within 4Å: Chain B: Q.99, D.102, E.104 Chain F: L.46, K.50, T.51, R.52 Ligand excluded by PLIP MRD.42: 7 residues within 4Å: Chain F: H.233, Y.234, P.244, N.295, I.296, V.297, F.349 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strater, N. et al., Two-metal ion mechanism of bovine lens leucine aminopeptidase: active site solvent structure and binding mode of L-leucinal, a gem-diolate transition state analogue, by X-ray crystallography. Biochemistry (1995)

Release Date

1995-10-15

Peptides

LEUCINE AMINOPEPTIDASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

LEUCINE AMINOPEPTIDASE

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