SMTL ID : 8yo1.1

structure of phage T6 topoisomerase II ATPase domain bound with AMPPNP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER

ANP.1: 23 residues within 4Å: Chain A: E.54, N.58, E.62, D.87, G.91, I.92, A.111, A.117, G.118, G.119, N.120, G.131, M.132, N.133, G.134, V.135, G.136, S.137, S.138, T.181, K.331 Chain B: N.4 Ligands: MG.2 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.58, A:D.87, A:G.91, A:G.119, A:N.120, A:N.120, A:M.132, A:N.133, A:N.133, A:G.134, A:V.135, A:V.135, A:S.137, A:S.137, A:S.138, A:T.181, A:K.331, B:N.4, B:N.4 ANP.3: 25 residues within 4Å: Chain A: N.4, I.6 Chain B: E.54, D.57, N.58, E.62, R.65, I.92, A.111, W.112, A.117, G.118, G.119, N.120, G.131, M.132, N.133, G.134, V.135, G.136, S.137, S.138, T.181, Q.329, K.331 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:E.54, B:N.58, B:E.62, B:R.65, B:R.65, B:G.119, B:N.120, B:N.120, B:M.132, B:N.133, B:G.134, B:V.135, B:G.136, B:S.137, B:S.138, B:S.138, B:T.181, B:Q.329, B:K.331

1 x MG: MAGNESIUM ION

MG.2: 5 residues within 4Å: Chain A: E.54, D.57, G.130, K.331 Ligands: ANP.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y.T. et al., structure of phage T6 topoisomerase II ATPase domain bound with AMPPNP. To be published

Release Date

2024-09-25

Peptides

DNA topoisomerase (ATP-hydrolyzing): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

DNA topoisomerase (ATP-hydrolyzing)

Related Entries With Identical Sequence