SMTL ID : 6awe.1

Crystal Structure of Purine Nucleoside Phosphorylase Isoform 2 from Schistosoma mansoni in complex with 2-fluoro-6-(2-pyridin-2-ylethylamino)benzonitrile

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-trimer

Ligands

24 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: 8 residues within 4Å: Chain A: G.34, S.35, R.86, H.88, N.117, L.118, S.222 Ligands: DMS.3 Ligand excluded by PLIP DMS.3: 9 residues within 4Å: Chain A: S.35, L.118, Y.202, M.221, H.259, V.262 Chain B: F.161 Ligands: DMS.2, C0J.9 Ligand excluded by PLIP DMS.4: 6 residues within 4Å: Chain A: P.159, F.161, P.162, D.163, C.231, H.232 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.8 Ligand excluded by PLIP DMS.6: 7 residues within 4Å: Chain A: V.63, A.64, E.91, G.92, Y.93 Chain B: G.151, P.152 Ligand excluded by PLIP DMS.7: 7 residues within 4Å: Chain A: D.28, I.29, R.78, R.111, V.112, L.284, P.285 Ligand excluded by PLIP DMS.8: 6 residues within 4Å: Chain A: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.5 Ligand excluded by PLIP DMS.10: 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.11: 8 residues within 4Å: Chain B: G.34, S.35, R.86, H.88, N.117, L.118, S.222 Ligands: DMS.12 Ligand excluded by PLIP DMS.12: 9 residues within 4Å: Chain B: S.35, L.118, Y.202, M.221, H.259, V.262 Chain C: F.161 Ligands: DMS.11, C0J.18 Ligand excluded by PLIP DMS.13: 6 residues within 4Å: Chain B: P.159, F.161, P.162, D.163, C.231, H.232 Ligand excluded by PLIP DMS.14: 7 residues within 4Å: Chain B: Y.9, K.106, L.107, E.156, F.157, C.233 Ligands: DMS.17 Ligand excluded by PLIP DMS.15: 7 residues within 4Å: Chain B: V.63, A.64, E.91, G.92, Y.93 Chain C: G.151, P.152 Ligand excluded by PLIP DMS.16: 7 residues within 4Å: Chain B: D.28, I.29, R.78, R.111, V.112, L.284, P.285 Ligand excluded by PLIP DMS.17: 6 residues within 4Å: Chain B: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.14 Ligand excluded by PLIP DMS.19: 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.20: 8 residues within 4Å: Chain C: G.34, S.35, R.86, H.88, N.117, L.118, S.222 Ligands: DMS.21 Ligand excluded by PLIP DMS.21: 9 residues within 4Å: Chain A: F.161 Chain C: S.35, L.118, Y.202, M.221, H.259, V.262 Ligands: DMS.20, C0J.27 Ligand excluded by PLIP DMS.22: 6 residues within 4Å: Chain C: P.159, F.161, P.162, D.163, C.231, H.232 Ligand excluded by PLIP DMS.23: 7 residues within 4Å: Chain C: Y.9, K.106, L.107, E.156, F.157, C.233 Ligands: DMS.26 Ligand excluded by PLIP DMS.24: 7 residues within 4Å: Chain A: G.151, P.152 Chain C: V.63, A.64, E.91, G.92, Y.93 Ligand excluded by PLIP DMS.25: 7 residues within 4Å: Chain C: D.28, I.29, R.78, R.111, V.112, L.284, P.285 Ligand excluded by PLIP DMS.26: 6 residues within 4Å: Chain C: D.155, E.156, F.157, G.158, P.159 Ligands: DMS.23 Ligand excluded by PLIP

3 x C0J: 2-fluoro-6-{[2-(pyridin-2-yl)ethyl]amino}benzonitrile(Non-covalent)

C0J.9: 21 residues within 4Å: Chain A: L.118, A.119, G.120, N.197, Y.202, E.203, S.208, V.219, G.220, M.221, A.244, N.245, S.247, D.250, V.255, S.256, I.257, V.262 Chain B: D.163, S.165 Ligands: DMS.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.202, A:A.244, A:I.257, A:I.257 Hydrogen bonds: A:N.197, A:E.203, A:E.203, A:E.203, A:N.245, A:S.247 pi-Stacking: A:Y.202 C0J.18: 21 residues within 4Å: Chain B: L.118, A.119, G.120, N.197, Y.202, E.203, S.208, V.219, G.220, M.221, A.244, N.245, S.247, D.250, V.255, S.256, I.257, V.262 Chain C: D.163, S.165 Ligands: DMS.12 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.202, B:A.244, B:I.257, B:I.257 Hydrogen bonds: B:N.197, B:E.203, B:E.203, B:E.203, B:N.245, B:S.247 pi-Stacking: B:Y.202 C0J.27: 21 residues within 4Å: Chain A: D.163, S.165 Chain C: L.118, A.119, G.120, N.197, Y.202, E.203, S.208, V.219, G.220, M.221, A.244, N.245, S.247, D.250, V.255, S.256, I.257, V.262 Ligands: DMS.21 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:Y.202, C:A.244, C:I.257, C:I.257 Hydrogen bonds: C:N.197, C:E.203, C:E.203, C:E.203, C:N.245, C:S.247 pi-Stacking: C:Y.202

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 2-fluoro-6-(2-pyridin-2-ylethylamino)benzonitrile. To Be Published

Release Date

2018-09-12

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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