SMTL ID : 3ztv.1

Structure of Haemophilus influenzae NAD nucleotidase (NadN)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.20, D.70, N.102, H.203, D.226 Ligands: ZN.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.70, A:D.226, H2O.1 ZN.2: 5 residues within 4Å: Chain A: D.20, H.22, D.70, H.228 Ligands: ZN.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.20, A:H.22, A:D.70, H2O.1 ZN.5: 6 residues within 4Å: Chain B: D.20, D.70, N.102, H.203, D.226 Ligands: ZN.6 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.70, B:D.226, H2O.25 ZN.6: 5 residues within 4Å: Chain B: D.20, H.22, D.70, H.228 Ligands: ZN.5 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.20, B:H.22, B:D.70, H2O.25

2 x ADN: ADENOSINE(Non-covalent)

ADN.3: 9 residues within 4Å: Chain A: N.408, G.410, G.411, F.432, N.434, S.462, G.464, Y.516, D.522 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.408, A:G.410, A:N.434, A:N.434, A:S.462, A:D.522 Water bridges: A:R.373, A:Q.407 pi-Stacking: A:F.432, A:F.432, A:Y.516, A:Y.516 ADN.7: 9 residues within 4Å: Chain B: N.408, G.410, G.411, F.432, N.434, S.462, G.464, Y.516, D.522 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:N.408, B:G.410, B:N.434, B:N.434, B:S.462, B:D.522 Water bridges: B:R.373, B:Q.407 pi-Stacking: B:F.432, B:F.432, B:Y.516, B:Y.516

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: H.28, T.30, I.43, W.265, A.266, Y.267, A.269 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.30, A:A.266 GOL.8: 7 residues within 4Å: Chain B: H.28, T.30, I.43, W.265, A.266, Y.267, A.269 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.30, B:A.266

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garavaglia, S. et al., The High-Resolution Crystal Structure of Periplasmic Haemophilus Influenzae Nad Nucleotidase Reveals a Novel Enzymatic Function of Human Cd73 Related to Nad Metabolism. Biochem.J. (2012)

Release Date

2011-12-14

Peptides

NAD NUCLEOTIDASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NAD NUCLEOTIDASE

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