SMTL ID : 3zu0.1

Structure of Haemophilus influenzae NAD nucleotidase (NadN)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 8 residues within 4Å: Chain A: D.20, D.70, N.102, H.103, H.203, D.226 Ligands: ZN.2, PO4.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.70, A:H.203, A:D.226 ZN.2: 6 residues within 4Å: Chain A: D.20, H.22, D.70, H.228 Ligands: ZN.1, PO4.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.20, A:H.22, A:D.70, A:H.228 ZN.5: 6 residues within 4Å: Chain B: D.20, D.70, N.102, H.203, D.226 Ligands: ZN.6 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.70, B:H.203, B:D.226, H2O.10 ZN.6: 5 residues within 4Å: Chain B: D.20, H.22, D.70, H.228 Ligands: ZN.5 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.20, B:H.22, B:D.70, B:H.228, H2O.10

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

PO4.3: 12 residues within 4Å: Chain A: D.20, H.22, D.70, N.102, H.103, K.163, H.203, D.226, H.228 Ligands: ZN.1, ZN.2, A12.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.102, A:N.102 Salt bridges: A:H.22, A:H.103, A:K.163, A:H.228

2 x A12: PHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

A12.4: 15 residues within 4Å: Chain A: H.22, H.103, S.167, R.373, N.408, G.410, G.411, R.413, F.432, N.434, S.462, G.464, Y.516, D.522 Ligands: PO4.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.167, A:S.167, A:R.373, A:R.373, A:R.413, A:R.413, A:N.434, A:N.434, A:S.462, A:Y.516, A:D.522 Water bridges: A:Q.407 pi-Stacking: A:F.432, A:F.432, A:Y.516, A:Y.516 A12.7: 8 residues within 4Å: Chain B: N.408, G.410, F.432, N.434, S.462, G.464, Y.516, D.522 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.408, B:G.410, B:N.434, B:N.434, B:S.462, B:S.462, B:D.522 pi-Stacking: B:F.432, B:F.432, B:Y.516, B:Y.516

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
B

NAD NUCLEOTIDASE

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