SMTL ID : 5w9q.1 (1 other biounit)

Zinc finger region of MBD1 in complex with CpG DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.22, G.23, C.25, C.28, C.44, R.45 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.22, A:C.25, A:C.28, A:C.44 ZN.2: 5 residues within 4Å: Chain A: C.10, G.11, C.13, C.16, C.49 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.10, A:C.13, A:C.16, A:C.49

8 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 4 residues within 4Å: Chain A: D.21, K.33, R.47 Chain B: A.5 No protein-ligand interaction detected (PLIP) UNX.4: 4 residues within 4Å: Chain A: F.27, D.30, R.41, Q.42 No protein-ligand interaction detected (PLIP) UNX.5: 2 residues within 4Å: Chain A: R.8, K.9 No protein-ligand interaction detected (PLIP) UNX.6: 5 residues within 4Å: Chain A: R.5 Chain B: C.6 Chain C: G.7, T.8, T.9 No protein-ligand interaction detected (PLIP) UNX.7: 2 residues within 4Å: Chain A: C.25, D.26 No protein-ligand interaction detected (PLIP) UNX.8: 4 residues within 4Å: Chain A: C.29, D.30, G.36, S.37 No protein-ligand interaction detected (PLIP) UNX.9: 3 residues within 4Å: Chain B: G.11 Chain C: G.1, C.2 No protein-ligand interaction detected (PLIP) UNX.10: 3 residues within 4Å: Chain B: G.7 Chain C: C.6, G.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, C. et al., DNA Sequence Recognition of Human CXXC Domains and Their Structural Determinants. Structure (2018)

Release Date

2017-10-18

Peptides

Methyl-CpG-binding domain protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methyl-CpG-binding domain protein 1

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