SMTL ID : 4wkc.1

Crystal structure of Escherichia coli 5'-methylthioadenosine/S-adenosyl homocysteine nucleosidase (MTAN) complexed with butylthio-DADMe-Immucillin-A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

homo-dimer

Ligands

2 x BIG: (3R,4S)-1-[(4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]-4-[(butylsulfanyl)methyl]pyrrolidin-3-ol(Non-covalent)

BIG.1: 21 residues within 4Å: Chain A: A.8, M.9, I.50, S.76, A.77, G.78, A.150, F.151, I.152, V.171, E.172, M.173, E.174, S.196, D.197, A.199, F.207 Chain B: V.102, F.105, Y.107 Ligands: PG4.2 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:F.105, B:Y.107, A:I.50, A:F.207 Hydrogen bonds: A:I.152, A:D.197, A:D.197 Water bridges: A:R.193 Salt bridges: A:E.12, A:E.174 BIG.3: 21 residues within 4Å: Chain A: V.102, F.105, Y.107 Chain B: A.8, M.9, I.50, S.76, A.77, G.78, A.150, F.151, I.152, V.171, E.172, M.173, E.174, S.196, D.197, A.199, F.207 Ligands: PG4.4 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:F.105, A:Y.107, B:I.50, B:F.207 Hydrogen bonds: B:I.152, B:D.197, B:D.197 Water bridges: B:R.193 Salt bridges: B:E.12, B:E.174

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 5 residues within 4Å: Chain A: M.9, E.11, D.208 Chain B: F.105 Ligands: BIG.1 No protein-ligand interaction detected (PLIP) PG4.4: 5 residues within 4Å: Chain A: F.105 Chain B: M.9, E.11, D.208 Ligands: BIG.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomas, K. et al., Active site and remote contributions to catalysis in methylthioadenosine nucleosidases. Biochemistry (2015)

Release Date

2015-08-19

Peptides

5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase

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