- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x MN: MANGANESE (II) ION(Non-covalent)
- 2 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)
12P.3: 11 residues within 4Å:- Chain A: L.23, R.24, K.27, Y.72, R.191, L.192, I.195, M.385, L.389, Q.392
- Ligands: DMS.6
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.27, A:R.191, A:R.191
12P.11: 11 residues within 4Å:- Chain B: L.23, R.24, K.27, Y.72, R.191, L.192, L.194, I.195, L.389, Q.392
- Ligands: DMS.14
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.27, B:R.191
- 2 x 01B: (2S,3R)-3-amino-2-hydroxy-4-phenylbutanoic acid(Non-covalent)
01B.4: 17 residues within 4Å:- Chain A: Y.249, P.250, V.252, H.263, V.265, D.280, D.291, H.373, H.380, E.400, E.424
- Chain B: I.60, P.61
- Ligands: MN.1, MN.2, DMS.5, DMS.7
7 PLIP interactions:2 interactions with chain B, 5 interactions with chain A- Hydrophobic interactions: B:I.60, B:I.60, A:Y.249, A:V.252, A:V.265
- Salt bridges: A:H.373, A:H.380
01B.12: 17 residues within 4Å:- Chain A: I.60, P.61
- Chain B: Y.249, P.250, V.252, H.263, V.265, D.280, D.291, H.373, H.380, E.400, E.424
- Ligands: MN.9, MN.10, DMS.13, DMS.15
8 PLIP interactions:6 interactions with chain B, 2 interactions with chain A- Hydrophobic interactions: B:Y.249, B:V.252, B:V.265, A:I.60, A:I.60
- Water bridges: B:H.263
- Salt bridges: B:H.373, B:H.380
- 6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.5: 8 residues within 4Å:- Chain A: L.262, H.263, H.369, E.400, R.422
- Chain B: W.112
- Ligands: 01B.4, DMS.7
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.422
DMS.6: 4 residues within 4Å:- Chain A: V.19, E.20, L.23
- Ligands: 12P.3
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:E.20
DMS.7: 8 residues within 4Å:- Chain A: H.369, H.370, G.372, H.373, R.387, E.400
- Ligands: 01B.4, DMS.5
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:H.370
- Salt bridges: A:E.400
DMS.13: 8 residues within 4Å:- Chain A: W.112
- Chain B: L.262, H.263, H.369, E.400, R.422
- Ligands: 01B.12, DMS.15
1 PLIP interactions:1 interactions with chain B- Water bridges: B:R.422
DMS.14: 4 residues within 4Å:- Chain B: V.19, E.20, L.23
- Ligands: 12P.11
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:E.20
DMS.15: 7 residues within 4Å:- Chain B: H.370, G.372, H.373, R.387, E.400
- Ligands: 01B.12, DMS.13
3 PLIP interactions:3 interactions with chain B- Water bridges: B:H.370, B:R.387
- Salt bridges: B:E.400
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Singh, R. et al., Structure of the human aminopeptidase XPNPEP3 and comparison of its in vitro activity with Icp55 orthologs: Insights into diverse cellular processes. J. Biol. Chem. (2017)
- Release Date
- 2017-05-17
- Peptides
- Probable Xaa-Pro aminopeptidase 3: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.65 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x MN: MANGANESE (II) ION(Non-covalent)
- 2 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)
- 2 x 01B: (2S,3R)-3-amino-2-hydroxy-4-phenylbutanoic acid(Non-covalent)
- 6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Singh, R. et al., Structure of the human aminopeptidase XPNPEP3 and comparison of its in vitro activity with Icp55 orthologs: Insights into diverse cellular processes. J. Biol. Chem. (2017)
- Release Date
- 2017-05-17
- Peptides
- Probable Xaa-Pro aminopeptidase 3: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B