SMTL ID : 6mu4.1

Bst DNA polymerase I FANA/DNA binary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 9 residues within 4Å: Chain A: T.11 Chain B: Y.415, G.416, I.417, F.487, R.490, M.491 Chain C: G.1, X.2 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.487 Hydrogen bonds: B:G.416, B:R.490 MPD.2: 10 residues within 4Å: Chain B: A.1, F.2, R.44, Y.120, A.122, E.146, V.149, R.150, A.153 Ligands: SO4.5 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.2, B:E.146, B:R.150 Hydrogen bonds: B:A.1 MPD.3: 8 residues within 4Å: Chain B: G.412, G.416, I.417, S.418, D.419, I.437, R.490, M.493 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:R.490 Water bridges: B:G.416

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

SO4.4: 3 residues within 4Å: Chain B: H.383, R.403, K.407 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.403, B:K.407 SO4.5: 2 residues within 4Å: Chain B: R.44 Ligands: MPD.2 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.44

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 2 residues within 4Å: Chain B: E.359, D.531 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.359

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jackson, L.N. et al., Crystal structures of a natural DNA polymerase that functions as an XNA reverse transcriptase. Nucleic Acids Res. (2019)

Release Date

2019-06-05

Peptides

DNA polymerase I: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

DNA polymerase I