SMTL ID : 1ktg.1 (1 other biounit)

Crystal Structure of a C. elegans Ap4A Hydrolase Binary Complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

PO4.1: 11 residues within 4Å: Chain A: K.36, G.37, H.38, E.52, E.56, E.103 Ligands: OH.2, MG.4, MG.5, MG.6, MG.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.38 Water bridges: A:E.103 Salt bridges: A:H.38

1 x OH: HYDROXIDE ION(Non-covalent)

OH.2: 7 residues within 4Å: Chain A: E.52, E.55, E.103 Ligands: PO4.1, MG.5, MG.6, MG.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.52 Water bridges: A:R.51, A:E.55

5 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: E.19, E.111 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.111, H2O.2, H2O.2 MG.4: 7 residues within 4Å: Chain A: K.36, G.37, E.52, E.56, E.103 Ligands: PO4.1, MG.7 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:K.36, A:E.56, H2O.1, H2O.2, H2O.2 MG.5: 6 residues within 4Å: Chain A: H.38, E.52 Ligands: PO4.1, OH.2, MG.6, MG.7 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.52, H2O.1, H2O.2, H2O.3, OH.2 MG.6: 5 residues within 4Å: Chain A: E.103 Ligands: PO4.1, OH.2, MG.5, MG.7 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.103, H2O.2, H2O.2, H2O.3, OH.2 MG.7: 8 residues within 4Å: Chain A: E.52, E.56, E.103 Ligands: PO4.1, OH.2, MG.4, MG.5, MG.6 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.52, A:E.56, A:E.103, H2O.1, OH.2

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.8: 7 residues within 4Å: Chain A: P.29, H.31, T.33, K.36, Y.76, K.83, Y.121 12 PLIP interactions: 12 interactions with chain A Water bridges: A:K.36, A:K.36, A:K.36, A:K.36, A:Y.76 Salt bridges: A:H.31, A:K.36, A:K.83 pi-Stacking: A:Y.76, A:Y.76, A:Y.121, A:Y.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bailey, S. et al., The crystal structure of diadenosine tetraphosphate hydrolase from Caenorhabditis elegans in free and binary complex forms. Structure (2002)

Release Date

2002-05-08

Peptides

Diadenosine Tetraphosphate Hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Diadenosine Tetraphosphate Hydrolase

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