SMTL ID : 9hdr.1

Human LINE-1 ORF2p target-primed reverse transcription complex with EN domain resolved

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.10 Å

Oligo State

monomer

Ligands

1 x DA- DA- DA- DA: Unassigned Nucleic Acid(Non-covalent)

DA-DA-DA-DA.1: 14 residues within 4Å: Chain A: S.884, R.885, W.887, F.888, I.892, N.893, R.897, P.898, L.899, R.901, L.902, P.1325, C.1326 Chain E: A.26 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.907, A:S.992, A:R.1624, A:R.1624 Salt bridges: A:K.991, A:K.991, A:K.1336 pi-Cation interactions: A:R.907, A:R.907

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.1122, A.1123, D.1224 Ligands: D3T.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.1122, A:A.1123, A:D.1224

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.1652, C.1656, H.1664, C.1669 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.1652, A:C.1656, A:H.1664, A:C.1669

1 x D3T: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE(Non-covalent)

D3T.4: 14 residues within 4Å: Chain A: K.1041, R.1053, D.1122, A.1123, E.1124, K.1125, A.1126, F.1127, Q.1181, D.1224 Chain B: T.37 Chain D: A.2, A.3 Ligands: MG.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.1127 Hydrogen bonds: A:K.1125, A:A.1126, A:D.1224 Salt bridges: A:K.1041, A:K.1041, A:R.1053, A:R.1053 pi-Cation interactions: A:R.1053

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghanim, G.E. et al., Structural mechanism of LINE-1 target-primed reverse transcription. Science (2025)

Release Date

2025-03-12

Peptides

LINE-1 retrotransposable element ORF2 protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

LINE-1 retrotransposable element ORF2 protein

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