SMTL ID : 1yry.2 (1 other biounit)

Crystal structure of human PNP complexed with MESG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: P.92, Q.144 Chain C: R.148 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Salt bridges: C:R.148 Hydrogen bonds: A:Q.144 SO4.2: 5 residues within 4Å: Chain A: G.32, G.34, L.35, G.36, Q.82 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.34, A:G.34, A:G.36, A:Q.82 Water bridges: A:G.37 SO4.3: 8 residues within 4Å: Chain A: G.32, S.33, R.84, H.86, N.115, A.116, S.220 Ligands: MSG.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.33, A:A.116, A:S.220 Salt bridges: A:R.84, A:H.86 SO4.5: 3 residues within 4Å: Chain A: R.148 Chain B: P.92, Q.144 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.148 Hydrogen bonds: B:Q.144 SO4.6: 5 residues within 4Å: Chain B: G.32, G.34, L.35, G.36, Q.82 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.34, B:G.34, B:G.36, B:Q.82 Water bridges: B:G.37 SO4.7: 8 residues within 4Å: Chain B: G.32, S.33, R.84, H.86, N.115, A.116, S.220 Ligands: MSG.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.33, B:A.116, B:S.220 Salt bridges: B:R.84, B:H.86 SO4.9: 3 residues within 4Å: Chain B: R.148 Chain C: P.92, Q.144 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Salt bridges: B:R.148 Hydrogen bonds: C:Q.144 SO4.10: 5 residues within 4Å: Chain C: G.32, G.34, L.35, G.36, Q.82 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.34, C:G.34, C:G.36, C:Q.82 Water bridges: C:G.37 SO4.11: 8 residues within 4Å: Chain C: G.32, S.33, R.84, H.86, N.115, A.116, S.220 Ligands: MSG.12 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.33, C:A.116, C:S.220 Salt bridges: C:R.84, C:H.86

3 x MSG: 7-METHYL-6-THIO-GUANOSINE(Non-covalent)

MSG.4: 17 residues within 4Å: Chain A: S.33, H.86, Y.88, A.116, A.117, G.118, F.200, E.201, V.217, G.218, M.219, T.242, N.243, V.245, H.257 Chain C: F.159 Ligands: SO4.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.88, A:Y.88, A:A.116, A:G.218, A:M.219, A:T.242 Salt bridges: A:E.201 MSG.8: 17 residues within 4Å: Chain A: F.159 Chain B: S.33, H.86, Y.88, A.116, A.117, G.118, F.200, E.201, V.217, G.218, M.219, T.242, N.243, V.245, H.257 Ligands: SO4.7 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.88, B:Y.88, B:A.116, B:G.218, B:M.219 Salt bridges: B:E.201 MSG.12: 17 residues within 4Å: Chain B: F.159 Chain C: S.33, H.86, Y.88, A.116, A.117, G.118, F.200, E.201, V.217, G.218, M.219, T.242, N.243, V.245, H.257 Ligands: SO4.11 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:Y.88, C:Y.88, C:A.116, C:G.218, C:M.219 Salt bridges: C:E.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silva, R.G. et al., Kinetics and crystal structure of human purine nucleoside phosphorylase in complex with 7-methyl-6-thio-guanosine. Arch.Biochem.Biophys. (2005)

Release Date

2006-01-17

Peptides

Purine nucleoside phosphorylase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
E

C
E

Purine nucleoside phosphorylase

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