SMTL ID : 8db8.1

Adenosine/guanosine nucleoside hydrolase bound to ImH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-tetramer

Ligands

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

IMH.1: 16 residues within 4Å: Chain A: D.12, D.13, N.37, I.76, I.79, H.80, L.125, M.151, N.160, E.166, F.167, N.168, W.193, F.230, D.239 Ligands: CA.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.37, A:N.160, A:N.160, A:F.167, A:N.168, A:D.239 IMH.5: 14 residues within 4Å: Chain D: D.12, D.13, N.37, H.80, L.125, M.151, N.160, E.166, F.167, N.168, W.193, A.238, D.239 Ligands: CA.6 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:N.37, D:N.160, D:N.160, D:E.166, D:F.167, D:N.168 pi-Stacking: D:H.80

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.8, D.13, N.37, L.125, D.239 Ligands: IMH.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.8, A:D.13, A:L.125, A:D.239, H2O.1 CA.3: 4 residues within 4Å: Chain B: D.8, D.13, L.125, D.239 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.8, B:D.13, B:D.239, H2O.2, H2O.4 CA.4: 5 residues within 4Å: Chain C: D.8, D.13, N.37, L.125, D.239 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.8, C:L.125, C:D.239, H2O.5, H2O.6 CA.6: 6 residues within 4Å: Chain D: D.8, D.13, N.37, L.125, D.239 Ligands: IMH.5 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.8, D:D.13, D:D.13, D:L.125, D:D.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Muellers, S.N. et al., Structure-Guided Insight into the Specificity and Mechanism of a Parasitic Nucleoside Hydrolase. Biochemistry (2022)

Release Date

2022-09-07

Peptides

Inosine-uridine preferring nucleoside hydrolase family protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
C

D
D

Inosine-uridine preferring nucleoside hydrolase family protein

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