SMTL ID : 6pr5.1

Cryo-EM structure of HzTransib strand transfer complex (STC)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

1 x DT- DT- DT- DT- DC- DG- DA- DT- DC: DNA (5'-D(P*TP*TP*TP*TP*CP*GP*AP*TP*C)-3')(Non-covalent)

DT-DT-DT-DT-DC-DG-DA-DT-DC.1: 27 residues within 4Å: Chain B: D.208, G.209, K.210, N.221, H.258, N.262, R.273, W.279, S.280, A.281, R.282, Q.287, Y.385, S.388, S.389, T.390 Chain E: G.22, A.23, T.24, C.25, G.26, A.27, A.28, A.29, A.30 Chain G: C.17 Ligands: MG.5 Protein-ligand interaction information (PLIP) not available

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.109, E.169, D.208 Chain C: A.18 Chain E: C.17 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.109, A:E.169, A:D.208 MG.3: 6 residues within 4Å: Chain A: D.109, G.110, E.419 Chain C: A.18 Chain E: G.16, C.17 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.109, A:E.419, A:E.419 MG.5: 6 residues within 4Å: Chain B: D.109, E.169, D.208 Chain G: C.17 Ligands: DT-DT-DT-DT-DC-DG-DA-DT-DC.1, MG.6 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.109, B:D.208 MG.6: 5 residues within 4Å: Chain B: D.109, E.419 Chain G: G.16, C.17 Ligands: MG.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.109, B:E.419, B:E.419

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.224, C.227, H.392, H.397 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.224, A:C.227, A:H.392, A:H.397 ZN.7: 4 residues within 4Å: Chain B: C.224, C.227, H.392, H.397 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.224, B:C.227, B:H.392, B:H.397

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., Structures of a RAG-like transposase during cut-and-paste transposition. Nature (2019)

Release Date

2019-10-09

Peptides

DNA-mediated transposase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

DNA-mediated transposase

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