SMTL ID : 6mw7.2 (1 other biounit)

Crystal structure of ATPase module of SMCHD1 bound to ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 20 residues within 4Å: Chain A: N.133, S.134, A.137, D.166, R.169, M.171, W.179, R.189, I.214, S.215, Y.216, F.217, G.218, V.219, G.220, G.221, K.222, T.302, K.507 Ligands: MG.3 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:N.133, A:D.166, A:R.169, A:R.189, A:R.189, A:R.189, A:S.215, A:Y.216, A:F.217, A:G.218, A:V.219, A:G.220, A:G.221, A:K.222, A:T.302 Water bridges: A:N.133, A:D.166, A:K.507, A:K.507, A:K.507 Salt bridges: A:K.222, A:K.507 ATP.5: 18 residues within 4Å: Chain B: N.133, S.134, A.137, D.166, M.171, W.179, R.189, S.215, Y.216, F.217, G.218, V.219, G.220, G.221, K.222, T.302, K.507 Ligands: MG.6 24 PLIP interactions: 24 interactions with chain B Hydrogen bonds: B:N.133, B:D.166, B:R.189, B:R.189, B:Y.216, B:F.217, B:G.218, B:V.219, B:G.220, B:G.221, B:K.222 Water bridges: B:N.133, B:S.134, B:D.166, B:S.215, B:S.215, B:S.215, B:K.507, B:K.507, B:K.507, B:K.507, B:K.507 Salt bridges: B:K.222, B:K.507

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 8 residues within 4Å: Chain A: R.169, Q.175, R.189, G.191, D.192, G.199, Y.200 Ligands: NA.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.169, A:R.169, A:Q.175, A:D.192, A:Y.200 Water bridges: A:N.178, A:R.189 Salt bridges: A:R.189

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: N.133 Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain B: N.133 Ligands: ATP.5 No protein-ligand interaction detected (PLIP)

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

NA.4: 2 residues within 4Å: Chain A: G.191 Ligands: SO4.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pedersen, L.C. et al., A ubiquitin-like domain is required for stabilizing the N-terminal ATPase module of human SMCHD1. Commun Biol (2019)

Release Date

2019-09-11

Peptides

Structural maintenance of chromosomes flexible hinge domain-containing protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Structural maintenance of chromosomes flexible hinge domain-containing protein 1

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