SMTL ID : 3lgs.2 (1 other biounit)

A. thaliana MTA nucleosidase in complex with S-adenosylhomocysteine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 15 residues within 4Å: Chain A: V.90, T.116, C.117, G.118, L.181, K.199, D.200, M.201, E.202, T.224, D.225, V.227, T.233, F.237 Ligands: ADE.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.199, A:M.201, A:D.225 Water bridges: A:T.116, A:T.116 SAH.4: 15 residues within 4Å: Chain B: A.34, V.90, T.116, C.117, G.118, L.181, K.199, D.200, M.201, E.202, T.224, D.225, T.233, F.237 Ligands: ADE.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.116, B:M.201, B:D.225 Water bridges: B:T.116, B:T.116, B:T.233

2 x ADE: ADENINE(Non-covalent)

ADE.2: 13 residues within 4Å: Chain A: T.116, C.117, G.118, L.181, K.199, D.200, M.201, T.224, D.225, V.227, T.233, F.237 Ligands: SAH.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.116, A:G.118, A:D.225 ADE.5: 13 residues within 4Å: Chain B: T.116, C.117, G.118, L.181, K.199, D.200, M.201, T.224, D.225, V.227, T.233, F.237 Ligands: SAH.4 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.116, B:T.224, B:D.225 Water bridges: B:M.201, B:T.233

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: V.137, L.150, V.153, L.155, R.174 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.174 EDO.6: 5 residues within 4Å: Chain B: D.129, V.130, N.169, L.170, K.171 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.130, B:K.171 EDO.7: 6 residues within 4Å: Chain B: T.51, S.54, P.55, L.56, W.62, L.64 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.51, B:L.56, B:G.57, B:L.64 Water bridges: B:T.51, B:S.54 EDO.8: 6 residues within 4Å: Chain B: V.133, S.134, A.158, F.159, T.161, I.172 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.161, B:T.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Siu, K.K. et al., Mechanism of substrate specificity in 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidases. J.Struct.Biol. (2011)

Release Date

2010-06-30

Peptides

5'-methylthioadenosine nucleosidases: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

5'-methylthioadenosine nucleosidases

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