SMTL ID : 1z5p.1

Crystal structure of MTA/AdoHcy nucleosidase with a ligand-free purine binding site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

4 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.1: 7 residues within 4Å: Chain A: N.49, E.145, L.146, L.230, E.233, S.234, Q.237 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.234 PE5.2: 6 residues within 4Å: Chain A: I.60, F.161 Chain B: F.115, Y.117, P.123 Ligands: GOL.3 No protein-ligand interaction detected (PLIP) PE5.5: 7 residues within 4Å: Chain B: N.49, E.145, L.146, L.230, E.233, S.234, Q.237 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.234 PE5.6: 6 residues within 4Å: Chain A: F.115, Y.117, P.123 Chain B: I.60, F.161 Ligands: GOL.7 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: I.60, E.182, M.183, E.184 Ligands: PE5.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.183, A:E.184, A:E.184 GOL.7: 5 residues within 4Å: Chain B: I.60, E.182, M.183, E.184 Ligands: PE5.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:M.183, B:E.184, B:E.184 Water bridges: B:E.184

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 8 residues within 4Å: Chain A: G.88, G.89, L.90, I.162, N.163, V.181, D.207, A.209 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.90, A:V.181, A:A.209 Hydrogen bonds: A:D.207 IPA.8: 8 residues within 4Å: Chain B: G.88, G.89, L.90, I.162, N.163, V.181, D.207, A.209 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.90, B:V.181, B:A.209 Hydrogen bonds: B:D.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, J.E. et al., Structural snapshots of MTA/AdoHcy nucleosidase along the reaction coordinate provide insights into enzyme and nucleoside flexibility during catalysis. J.Mol.Biol. (2005)

Release Date

2005-10-04

Peptides

MTA/SAH nucleosidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

MTA/SAH nucleosidase

Related Entries With Identical Sequence