SMTL ID : 4nec.3 (3 other biounits)

Conversion of a Disulfide Bond into a Thioacetal Group during Echinomycin Biosynthesis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x DSN- ALA- N2C- MVA- DSN- ALA- NCY- MVA: Echinomycin(Non-covalent)

DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1: 19 residues within 4Å: Chain A: M.21, V.24, F.25, P.34, F.35, P.40, W.41, G.132, H.135, T.136, I.164, S.169, Q.173, L.176, I.183, R.198 Ligands: SAH.2, QUI.4, QUI.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.25, A:P.34, A:P.40, A:L.176, A:I.183, A:R.198 Water bridges: A:Q.173 Salt bridges: A:R.198

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

SAH.2: 16 residues within 4Å: Chain A: F.25, Y.29, W.41, G.67, C.68, G.69, D.88, L.89, A.113, D.114, A.115, S.131, G.132, L.133, F.137 Ligands: DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:Y.29, A:Y.29, A:G.69, A:L.89, A:S.90, A:D.114, A:A.115, A:S.131 Water bridges: A:Y.29, A:W.41, A:D.42, A:Q.47, A:T.70, A:E.72, A:D.73, A:D.73, A:S.131, A:S.131, A:S.131

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: A.177, I.180, D.181, I.183 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.177

2 x QUI: 2-CARBOXYQUINOXALINE(Non-covalent)

QUI.4: 6 residues within 4Å: Chain A: Q.173, P.184 Ligands: DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1, DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1, DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1, QUI.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.173 QUI.5: 3 residues within 4Å: Chain A: Q.173 Ligands: DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA.1, QUI.4 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Q.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hotta, K. et al., Conversion of a disulfide bond into a thioacetal group during echinomycin biosynthesis. Angew.Chem.Int.Ed.Engl. (2014)

Release Date

2014-01-15

Peptides

Putative SAM-dependent methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Putative SAM-dependent methyltransferase

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