SMTL ID : 5z41.1

Aquifex aeolicus MutL endonuclease domain with a single zinc ion.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: E.34, C.48, C.79, H.81 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.34, A:E.34, A:C.48, A:C.79, A:H.81 ZN.6: 4 residues within 4Å: Chain B: E.34, C.48, C.79, H.81 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.34, B:E.34, B:C.48, B:C.79, B:H.81

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: N.75, P.76, H.77, V.78 Ligands: MG.3 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain A: E.74, N.75, H.77 Ligands: MG.2 No protein-ligand interaction detected (PLIP) MG.7: 5 residues within 4Å: Chain B: N.75, P.76, H.77, V.78 Ligands: MG.8 No protein-ligand interaction detected (PLIP) MG.8: 4 residues within 4Å: Chain B: E.74, N.75, H.77 Ligands: MG.7 No protein-ligand interaction detected (PLIP)

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 4 residues within 4Å: Chain A: E.22, P.90, R.92, E.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.22, A:E.22 PEG.5: 7 residues within 4Å: Chain A: E.34, N.37, Y.38, L.46, R.49, P.80, H.81 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.49, A:R.49 Water bridges: A:L.46, A:H.81 PEG.9: 4 residues within 4Å: Chain B: E.22, P.90, R.92, E.93 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.22 PEG.10: 7 residues within 4Å: Chain B: E.34, N.37, Y.38, L.46, R.49, P.80, H.81 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.49, B:R.49 Water bridges: B:L.46, B:H.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fukui, K. et al., Multiple zinc ions maintain the open conformation of the catalytic site in the DNA mismatch repair endonuclease MutL from Aquifex aeolicus. FEBS Lett. (2018)

Release Date

2018-04-25

Peptides

DNA mismatch repair protein MutL: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

DNA mismatch repair protein MutL

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