SMTL ID : 3gb9.1

Human purine nucleoside phosphorylase double mutant E201Q,N243D complexed with 2-fluoroadenine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-trimer

Ligands

3 x A2F: 2-fluoroadenine(Non-covalent)

A2F.1: 10 residues within 4Å: Chain A: A.139, G.140, V.217, F.222, Q.223, V.239, G.240, M.241, D.265, V.267 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.223, A:Q.223, A:D.265 Water bridges: A:T.264 pi-Stacking: A:F.222 A2F.14: 10 residues within 4Å: Chain B: A.139, G.140, V.217, F.222, Q.223, V.239, G.240, M.241, D.265, V.267 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.223, B:Q.223, B:D.265 Water bridges: B:M.241 pi-Stacking: B:F.222 A2F.27: 10 residues within 4Å: Chain C: A.139, G.140, V.217, F.222, Q.223, V.239, G.240, M.241, D.265, V.267 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.223, C:Q.223 Water bridges: C:A.138 pi-Stacking: C:F.222

33 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: G.54, S.55, R.106, H.108, N.137, A.138, S.242 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: P.114, Q.166 Chain B: H.22 Chain C: R.170 Ligand excluded by PLIP SO4.4: 6 residues within 4Å: Chain A: G.54, S.55, G.56, L.57, G.58, Q.104 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: D.186, R.251 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain A: R.155, R.190, R.193 Chain B: Y.271 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: P.79, R.80, K.117 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain A: T.28, Y.29, E.30, R.176 Ligand excluded by PLIP SO4.9: 2 residues within 4Å: Chain A: N.143, K.145 Ligand excluded by PLIP SO4.10: 1 residues within 4Å: Chain A: H.86 Ligand excluded by PLIP SO4.11: 1 residues within 4Å: Chain A: R.195 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain A: R.229, Y.271 Chain C: R.155 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain A: R.195, P.305 Ligand excluded by PLIP SO4.15: 7 residues within 4Å: Chain B: G.54, S.55, R.106, H.108, N.137, A.138, S.242 Ligand excluded by PLIP SO4.16: 1 residues within 4Å: Chain B: R.251 Ligand excluded by PLIP SO4.17: 6 residues within 4Å: Chain A: R.170 Chain B: G.21, H.22, M.23, P.114, Q.166 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain B: G.21, H.22, R.170 Chain C: P.114, Q.166 Ligand excluded by PLIP SO4.19: 6 residues within 4Å: Chain B: G.54, S.55, G.56, L.57, G.58, Q.104 Ligand excluded by PLIP SO4.20: 4 residues within 4Å: Chain B: R.155, R.190, R.193 Chain C: Y.271 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain B: T.28, Y.29, E.30, R.176 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain B: D.62, R.89 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain B: R.155 Chain C: R.229, Y.271 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain A: R.155 Chain B: R.229, Y.271 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain B: N.143, K.145 Ligand excluded by PLIP SO4.26: 5 residues within 4Å: Chain B: Y.27, F.78, P.79, R.80, K.117 Ligand excluded by PLIP SO4.28: 7 residues within 4Å: Chain C: G.54, S.55, R.106, H.108, N.137, A.138, S.242 Ligand excluded by PLIP SO4.29: 6 residues within 4Å: Chain C: G.54, S.55, G.56, L.57, G.58, Q.104 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain C: R.195, P.305, L.306 Ligand excluded by PLIP SO4.31: 4 residues within 4Å: Chain A: Y.271 Chain C: R.155, R.190, R.193 Ligand excluded by PLIP SO4.32: 1 residues within 4Å: Chain C: R.251 Ligand excluded by PLIP SO4.33: 4 residues within 4Å: Chain C: Y.27, P.79, R.80, K.117 Ligand excluded by PLIP SO4.34: 2 residues within 4Å: Chain C: N.143, K.145 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain C: S.198, K.201 Ligand excluded by PLIP SO4.36: 1 residues within 4Å: Chain C: R.195 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.37: 3 residues within 4Å: Chain C: E.205, K.292, Q.295 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.205, C:K.292

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Afshar, S. et al., Structure of a mutant human purine nucleoside phosphorylase with the prodrug, 2-fluoro-2'-deoxyadenosine and the cytotoxic drug, 2-fluoroadenine. Protein Sci. (2009)

Release Date

2009-04-14

Peptides

Purine nucleoside phosphorylase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Purine nucleoside phosphorylase

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