SMTL ID : 1l1r.1

Crystal Structure of APRTase from Giardia lamblia Complexed with 9-deazaadenine, Mg2+ and PRPP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.61, S.62, D.124 Ligands: PRP.3 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain B: E.61, S.62, D.124 Ligands: PRP.6 No protein-ligand interaction detected (PLIP)

2 x 9DA: 9-DEAZAADENINE(Non-covalent)

9DA.2: 9 residues within 4Å: Chain A: A.24, F.25, K.26, R.63, E.100, Y.101, A.128, I.158 Ligands: PRP.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.101 Hydrogen bonds: A:A.24, A:K.26, A:R.63, A:R.63, A:E.100 9DA.5: 9 residues within 4Å: Chain B: A.24, F.25, K.26, R.63, E.100, Y.101, A.128, I.158 Ligands: PRP.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.101 Hydrogen bonds: B:A.24, B:K.26, B:R.63, B:R.63, B:E.100

2 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)

PRP.3: 19 residues within 4Å: Chain A: E.61, S.62, R.63, K.84, M.99, E.100, Y.101, D.124, D.125, V.126, L.127, A.128, T.129, G.130, G.131, T.132 Chain B: R.83 Ligands: MG.1, 9DA.2 24 PLIP interactions: 22 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.62, A:R.63, A:R.63, A:E.100, A:Y.101, A:Y.101, A:D.124, A:A.128, A:T.129, A:G.130, A:G.131, A:T.132, A:T.132, A:T.132 Water bridges: A:R.63, A:G.64, A:L.133, B:R.83 Salt bridges: A:R.63, A:R.63, A:R.63, A:K.84, A:K.84, B:R.83 PRP.6: 19 residues within 4Å: Chain A: R.83 Chain B: E.61, S.62, R.63, K.84, M.99, E.100, Y.101, D.124, D.125, V.126, L.127, A.128, T.129, G.130, G.131, T.132 Ligands: MG.4, 9DA.5 23 PLIP interactions: 21 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.62, B:R.63, B:R.63, B:E.100, B:Y.101, B:D.124, B:A.128, B:T.129, B:G.130, B:G.131, B:T.132, B:T.132 Water bridges: B:R.63, B:G.64, B:D.124, B:L.133, A:R.83 Salt bridges: B:R.63, B:R.63, B:R.63, B:K.84, B:K.84, A:R.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, W. et al., Closed Site Complexes of Adenine Phosphoribosyltransferase from Giardia lamblia Reveal a Mechanism of Ribosyl Migration. J.Biol.Chem. (2002)

Release Date

2002-11-27

Peptides

Adenine phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Adenine phosphoribosyltransferase

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