SMTL ID : 6x67.1

Cryo-EM structure of piggyBac transposase strand transfer complex (STC)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x DG- DC- DA- DC- DA- DG- DT- DC: DNA (tDNA)(Non-covalent)

DG-DC-DA-DC-DA-DG-DT-DC.1: 15 residues within 4Å: Chain A: E.269, P.285, N.286, D.346, N.347, R.372 Chain B: A.411 Chain D: G.40, A.41, C.42, T.43, G.44, T.45, G.46, C.47 Protein-ligand interaction information (PLIP) not available DG-DC-DA-DC-DA-DG-DT-DC.2: 14 residues within 4Å: Chain B: E.269, P.285, D.346, N.347 Chain D: T.36 Chain F: G.40, A.41, C.42, T.43, G.44, T.45, G.46, C.47 Ligands: CA.9 Protein-ligand interaction information (PLIP) not available

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.559, C.562, C.582, H.585 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.559, A:C.562, A:C.582, A:H.585 ZN.4: 4 residues within 4Å: Chain A: C.574, C.577, C.590, C.593 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.574, A:C.577, A:C.590, A:C.593 ZN.7: 4 residues within 4Å: Chain B: C.559, C.562, C.582, H.585 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.559, B:C.562, B:C.582, B:H.585 ZN.8: 4 residues within 4Å: Chain B: C.574, C.577, C.590, C.593 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.574, B:C.577, B:C.590, B:C.593

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 3 residues within 4Å: Chain A: D.268, D.346 Chain F: T.36 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.268, A:D.268, A:D.346 CA.6: 3 residues within 4Å: Chain A: D.197, D.218 Chain C: G.12 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.218 CA.9: 5 residues within 4Å: Chain B: D.268, D.346 Chain D: G.35, T.36 Ligands: DG-DC-DA-DC-DA-DG-DT-DC.2 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.268, B:D.268, B:D.346 CA.10: 2 residues within 4Å: Chain B: D.197, D.218 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.197, B:D.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Q. et al., Structural basis of seamless excision and specific targeting by piggyBac transposase. Nat Commun (2020)

Release Date

2020-07-22

Peptides

Transposase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Transposase

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