SMTL ID : 3k8o.2 (1 other biounit)

Crystal structure of human purine nucleoside phosphorylase in complex with DATMe-ImmH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.148 Chain B: P.92, Q.144 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.144 Salt bridges: A:R.148 SO4.2: 3 residues within 4Å: Chain A: R.133 Chain B: R.207, Y.249 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.133, B:R.207 SO4.3: 9 residues within 4Å: Chain A: G.32, S.33, H.64, R.84, H.86, N.115, A.116, S.220 Ligands: 229.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.33, A:S.33, A:A.116, A:S.220, A:S.220 Water bridges: A:S.220 Salt bridges: A:H.64, A:R.84, A:H.86 SO4.5: 3 residues within 4Å: Chain B: R.133 Chain C: R.207, Y.249 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Salt bridges: C:R.207, B:R.133 SO4.6: 9 residues within 4Å: Chain B: G.32, S.33, H.64, R.84, H.86, N.115, A.116, S.220 Ligands: 229.7 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.33, B:A.116, B:S.220 Salt bridges: B:H.64, B:R.84, B:H.86 SO4.8: 3 residues within 4Å: Chain B: R.148 Chain C: P.92, Q.144 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Q.144 Salt bridges: B:R.148 SO4.9: 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 SO4.10: 9 residues within 4Å: Chain C: G.32, S.33, H.64, R.84, H.86, N.115, A.116, S.220 Ligands: 229.11 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:S.33, C:S.33, C:A.116, C:S.220, C:S.220 Water bridges: C:S.220 Salt bridges: C:H.64, C:R.84, C:H.86

3 x 229: 7-({[(1R,2S)-2,3-DIHYDROXY-1-(HYDROXYMETHYL)PROPYL]AMINO}METHYL)-3,5-DIHYDRO-4H-PYRROLO[3,2-D]PYRIMIDIN-4-ONE(Non-covalent)

229.4: 19 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, S.220, T.242, N.243, V.245, H.257, V.260 Chain C: F.159 Ligands: SO4.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.33, A:E.201, A:M.219, A:S.220, A:T.242, A:N.243, A:N.243, A:H.257 Water bridges: A:E.201, A:E.201, A:S.220 pi-Stacking: A:F.200 229.7: 19 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, S.220, T.242, N.243, V.245, H.257, V.260 Ligands: SO4.6 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.33, B:Y.88, B:E.201, B:M.219, B:M.219, B:T.242, B:N.243, B:N.243, B:H.257 Water bridges: B:E.201 pi-Stacking: B:F.200 229.11: 19 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, S.220, T.242, N.243, V.245, H.257, V.260 Ligands: SO4.10 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:S.33, C:Y.88, C:E.201, C:M.219, C:S.220, C:N.243, C:N.243, C:H.257 Water bridges: C:E.201, C:S.220 pi-Stacking: C:F.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ho, M. et al., Crystal structure of human purine nucleoside phosphorylase in complex with DATMe-Immucillin H. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-03-02

Peptides

Purine nucleoside phosphorylase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
S

B
T

C
U

Purine nucleoside phosphorylase

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