SMTL ID : 5t6b.1 (3 other biounits)

X-ray structure of the KijD1 C3-methyltransfeerase, converted to monomeric form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.15, C.18, C.56, C.59 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.15, A:C.18, A:C.56, A:C.59

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

SAH.2: 20 residues within 4Å: Chain A: F.74, Y.78, Y.80, S.82, F.92, I.114, G.115, N.117, F.135, E.136, P.137, S.138, F.156, F.157, A.178, N.179, T.180, H.183, I.184, Y.186 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:N.117 Hydrogen bonds: A:G.115, A:N.117, A:S.138, A:S.138, A:F.157, A:F.157, A:N.179 Water bridges: A:A.178 pi-Stacking: A:F.74

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 4 residues within 4Å: Chain A: R.70, E.158, Y.186, S.189 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.16 Salt bridges: A:E.158

1 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.4: 12 residues within 4Å: Chain A: Y.80, Y.325, T.328, D.350, T.351, T.352, K.355, N.387, H.388, E.391, I.392, K.395 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:H.388, A:I.392 Hydrogen bonds: A:Y.80, A:Y.80, A:T.351, A:T.352, A:K.355, A:N.387, A:K.395 Water bridges: A:K.330 Salt bridges: A:H.256, A:H.388

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dow, G.T. et al., Structural studies on KijD1, a sugar C-3'-methyltransferase. Protein Sci. (2016)

Release Date

2016-09-14

Peptides

Sugar 3-C-methyl transferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Sugar 3-C-methyl transferase

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