SMTL ID : 6b2l.1

Crystal Structure of Purine Nucleoside Phosphorylase Isoform 2 from Schistosoma mansoni in complex with piperidin-2-Imine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

homo-trimer

Ligands

21 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 12 residues within 4Å: Chain A: A.7, N.95, Q.96, A.99, R.103, V.148, L.149, V.150, G.151, P.152, Q.154, I.229 Ligand excluded by PLIP DMS.2: 10 residues within 4Å: Chain A: G.34, S.35, R.86, H.88, N.117, L.118, Y.194, M.221, S.222 Ligands: DMS.3 Ligand excluded by PLIP DMS.3: 10 residues within 4Å: Chain A: S.35, L.118, Y.202, M.221, H.259, V.262, L.263 Chain B: F.161 Ligands: DMS.2, 2IM.8 Ligand excluded by PLIP DMS.4: 6 residues within 4Å: Chain A: P.159, P.162, D.163, C.231, H.232, G.234 Ligand excluded by PLIP DMS.5: 7 residues within 4Å: Chain A: Y.9, K.106, L.107, E.156, F.157, C.233 Ligands: DMS.7 Ligand excluded by PLIP DMS.6: 6 residues within 4Å: Chain A: V.63, E.91, G.92, Y.93 Chain B: G.151, P.152 Ligand excluded by PLIP DMS.7: 6 residues within 4Å: Chain A: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.5 Ligand excluded by PLIP DMS.9: 12 residues within 4Å: Chain B: A.7, N.95, Q.96, A.99, R.103, V.148, L.149, V.150, G.151, P.152, Q.154, I.229 Ligand excluded by PLIP DMS.10: 10 residues within 4Å: Chain B: G.34, S.35, R.86, H.88, N.117, L.118, Y.194, M.221, S.222 Ligands: DMS.11 Ligand excluded by PLIP DMS.11: 10 residues within 4Å: Chain B: S.35, L.118, Y.202, M.221, H.259, V.262, L.263 Chain C: F.161 Ligands: DMS.10, 2IM.16 Ligand excluded by PLIP DMS.12: 6 residues within 4Å: Chain B: P.159, P.162, D.163, C.231, H.232, G.234 Ligand excluded by PLIP DMS.13: 7 residues within 4Å: Chain B: Y.9, K.106, L.107, E.156, F.157, C.233 Ligands: DMS.15 Ligand excluded by PLIP DMS.14: 6 residues within 4Å: Chain B: V.63, E.91, G.92, Y.93 Chain C: G.151, P.152 Ligand excluded by PLIP DMS.15: 6 residues within 4Å: Chain B: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.13 Ligand excluded by PLIP DMS.17: 12 residues within 4Å: Chain C: A.7, N.95, Q.96, A.99, R.103, V.148, L.149, V.150, G.151, P.152, Q.154, I.229 Ligand excluded by PLIP DMS.18: 10 residues within 4Å: Chain C: G.34, S.35, R.86, H.88, N.117, L.118, Y.194, M.221, S.222 Ligands: DMS.19 Ligand excluded by PLIP DMS.19: 10 residues within 4Å: Chain A: F.161 Chain C: S.35, L.118, Y.202, M.221, H.259, V.262, L.263 Ligands: DMS.18, 2IM.24 Ligand excluded by PLIP DMS.20: 6 residues within 4Å: Chain C: P.159, P.162, D.163, C.231, H.232, G.234 Ligand excluded by PLIP DMS.21: 7 residues within 4Å: Chain C: Y.9, K.106, L.107, E.156, F.157, C.233 Ligands: DMS.23 Ligand excluded by PLIP DMS.22: 6 residues within 4Å: Chain A: G.151, P.152 Chain C: V.63, E.91, G.92, Y.93 Ligand excluded by PLIP DMS.23: 6 residues within 4Å: Chain C: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.21 Ligand excluded by PLIP

3 x 2IM: PIPERIDIN-2-IMINE(Non-covalent)

2IM.8: 14 residues within 4Å: Chain A: L.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, A.244, N.245, S.247, I.257, V.262 Ligands: DMS.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.202, A:A.244, A:V.262 Hydrogen bonds: A:G.120, A:E.203, A:E.203, A:N.245, A:S.247 Water bridges: A:E.203 2IM.16: 14 residues within 4Å: Chain B: L.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, A.244, N.245, S.247, I.257, V.262 Ligands: DMS.11 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.202, B:A.244, B:V.262 Hydrogen bonds: B:G.120, B:E.203, B:E.203, B:N.245, B:S.247 Water bridges: B:E.203 2IM.24: 14 residues within 4Å: Chain C: L.118, A.119, G.120, Y.202, E.203, V.219, G.220, M.221, A.244, N.245, S.247, I.257, V.262 Ligands: DMS.19 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:Y.202, C:A.244, C:V.262 Hydrogen bonds: C:G.120, C:E.203, C:E.203, C:N.245, C:S.247 Water bridges: C:E.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Faheem, M. et al., Crystal Structure of Purine Nucleoside Phosphorylase Isoform 2 from Schistosoma mansoni in complex with piperidin-2-Imine. To Be Published

Release Date

2018-09-26

Peptides

Purine nucleoside phosphorylase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Purine nucleoside phosphorylase

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