SMTL ID : 1mqe.1

Structure of the MT-ADPRase in complex with gadolidium and ADP-ribose, a Nudix enzyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x APR: ADENOSINE-5-DIPHOSPHORIBOSE(Non-covalent)

APR.1: 18 residues within 4Å: Chain A: A.18, I.19, A.45, R.64, A.76, G.77, L.78, E.120, V.122, N.166, I.168 Chain B: T.36, R.37, E.38, A.114, P.115, G.116 Ligands: GD3.2 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Q.62, A:L.78, A:E.120, A:N.166, B:E.38, B:G.116, B:G.116 Water bridges: A:R.64, A:E.73, A:E.73, A:L.78, A:D.80, A:T.113 Salt bridges: A:R.64, A:R.64 pi-Cation interactions: B:R.37 APR.3: 18 residues within 4Å: Chain A: T.36, R.37, E.38, A.114, P.115, G.116 Chain B: A.18, I.19, A.45, R.64, A.76, G.77, L.78, E.120, V.122, N.166, I.168 Ligands: GD3.4 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Q.62, B:L.78, B:E.120, B:N.166, A:E.38, A:G.116, A:G.116 Water bridges: B:R.64, B:E.73, B:E.73, B:L.78, B:D.80 Salt bridges: B:R.64, B:R.64 pi-Cation interactions: A:R.37

2 x GD3: GADOLINIUM ION(Non-covalent)

GD3.2: 3 residues within 4Å: Chain A: E.93, E.97 Ligands: APR.1 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.93, H2O.1, H2O.1 GD3.4: 3 residues within 4Å: Chain B: E.93, E.97 Ligands: APR.3 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.93, H2O.4, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, L.-W. et al., Structure and mechanism of MT-ADPRase, a Nudix hydrolase from Mycobacterium tuberculosis. Structure (2003)

Release Date

2003-08-05

Peptides

ADPR pyrophosphatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ADPR pyrophosphatase

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