SMTL ID : 6nju.1 (1 other biounit)

Mouse endonuclease G mutant H97A bound to A-DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: A.97, N.128 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain B: N.128 No protein-ligand interaction detected (PLIP) MG.7: 2 residues within 4Å: Chain D: A.97, N.128 No protein-ligand interaction detected (PLIP) MG.10: 1 residues within 4Å: Chain E: N.128 No protein-ligand interaction detected (PLIP)

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 5 residues within 4Å: Chain A: E.35, S.36, R.59, H.104, W.106 Ligand excluded by PLIP CL.3: 1 residues within 4Å: Chain A: H.78 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: I.174, G.175 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain D: E.35, S.36, R.59, H.104, W.106 Ligand excluded by PLIP CL.9: 1 residues within 4Å: Chain D: H.78 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain E: I.174, G.175 Ligand excluded by PLIP

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.6: 5 residues within 4Å: Chain B: D.75 Chain C: C.2, G.3, G.4 Chain F: C.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.75, B:D.75 TRS.12: 5 residues within 4Å: Chain C: C.7 Chain E: D.75 Chain F: C.2, G.3, G.4 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:D.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vander Zanden, C.M. et al., Structural adaptation of vertebrate endonuclease G for 5-hydroxymethylcytosine recognition and function. Nucleic Acids Res. (2020)

Release Date

2020-01-08

Peptides

Endonuclease G, mitochondrial: ABDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

D
C

E
D

Endonuclease G, mitochondrial

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