SMTL ID : 8zb3.3 (2 other biounits)

Crystal structure of NudC from Mycobacterium abscessus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

7 x CA: CALCIUM ION(Non-covalent)

CA.1: 1 residues within 4Å: Chain A: D.51 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.51 CA.2: 1 residues within 4Å: Chain A: E.296 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.296, A:E.296 CA.3: 3 residues within 4Å: Chain A: A.34, D.58, A.60 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:A.34, A:D.58, H2O.2 CA.4: 4 residues within 4Å: Chain A: E.207, E.210, E.211, E.253 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.207, A:E.210, A:E.211, H2O.1 CA.5: 3 residues within 4Å: Chain A: D.251 Chain B: D.20, E.21 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:D.251, B:E.21, H2O.2 CA.7: 4 residues within 4Å: Chain B: A.191, E.211, E.253 Ligands: CA.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:A.191, B:E.211, B:E.253, H2O.2 CA.8: 5 residues within 4Å: Chain B: E.207, E.211, D.251, E.253 Ligands: CA.7 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.207, B:E.211, B:D.251, B:E.253, H2O.3

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.6: 6 residues within 4Å: Chain A: Q.53, I.56, I.76, D.107, T.109, S.110 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meng, L. et al., Structural Studies on Mycobacterial NudC Reveal a Class of Zinc Independent NADH Pyrophosphatase. J.Mol.Biol. (2024)

Release Date

2024-12-11

Peptides

NAD(+) diphosphatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

NAD(+) diphosphatase

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