SMTL ID : 2oc4.1

Crystal structure of human purine nucleoside phosphorylase mutant H257D with Imm-H

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-trimer

Ligands

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 6 residues within 4Å: Chain A: R.84, H.86, N.115, A.116, S.220 Ligands: IMH.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.116, A:M.219, A:S.220, A:S.220 Salt bridges: A:R.84, A:H.86 PO4.3: 6 residues within 4Å: Chain B: R.84, H.86, N.115, A.116, S.220 Ligands: IMH.4 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:A.116, B:M.219, B:S.220, B:S.220 Salt bridges: B:R.84, B:H.86 PO4.5: 6 residues within 4Å: Chain C: R.84, H.86, N.115, A.116, S.220 Ligands: IMH.6 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:A.116, C:M.219, C:S.220, C:S.220 Salt bridges: C:R.84, C:H.86

3 x IMH: 1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL(Non-covalent)

IMH.2: 17 residues within 4Å: Chain A: 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, D.257, V.260 Chain C: F.159 Ligands: PO4.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.88, A:Y.88, A:E.201, A:M.219, A:N.243, A:N.243 Water bridges: A:S.220 pi-Stacking: A:F.200 IMH.4: 17 residues within 4Å: Chain A: F.159 Chain B: 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, D.257, V.260 Ligands: PO4.3 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:Y.88, B:Y.88, B:E.201, B:M.219, B:N.243, B:N.243 Water bridges: B:S.220 pi-Stacking: B:F.200 IMH.6: 17 residues within 4Å: Chain B: F.159 Chain C: 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, D.257, V.260 Ligands: PO4.5 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:Y.88, C:Y.88, C:E.201, C:M.219, C:N.243, C:N.243 Water bridges: C:S.220 pi-Stacking: C:F.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murkin, A.S. et al., Neighboring Group Participation in the Transition State of Human Purine Nucleoside Phosphorylase. Biochemistry (2007)

Release Date

2007-05-22

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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