SMTL ID : 7ne6.1

Human TET2 in complex with unfavourable DNA substrate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.68, C.146, C.148, H.255 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.68, A:C.146, A:C.148, A:H.255 ZN.2: 4 residues within 4Å: Chain A: C.8, C.10, H.94, C.96 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.8, A:C.10, A:H.94, A:C.96 ZN.3: 4 residues within 4Å: Chain A: C.164, C.173, C.233, H.439 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.164, A:C.173, A:C.233, A:H.439

1 x OGA: N-OXALYLGLYCINE(Non-covalent)

OGA.4: 13 residues within 4Å: Chain A: R.136, C.249, H.257, D.259, V.270, H.291, H.408, T.410, R.423, S.425, V.427 Chain B: C.6 Ligands: MN.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.425 Water bridges: A:R.423 Salt bridges: A:R.136, A:H.257, A:H.291, A:R.423

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

EDO.5: 7 residues within 4Å: Chain A: W.166, S.167, M.168, H.261 Chain B: G.5, C.6, G.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.168 Water bridges: A:W.166

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

MES.6: 7 residues within 4Å: Chain A: E.61, A.256, H.257, R.258, L.260, L.407 Chain C: G.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.258 Salt bridges: A:R.258

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.7: 4 residues within 4Å: Chain A: H.257, D.259, H.408 Ligands: OGA.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.257, A:D.259, A:D.259, A:H.408, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ravichandran, M. et al., Pronounced sequence specificity of the TET enzyme catalytic domain guides its cellular function. Sci Adv (2022)

Release Date

2022-03-02

Peptides

Methylcytosine dioxygenase TET2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methylcytosine dioxygenase TET2

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