SMTL ID : 2vjv.1

Crystal structure of the IS608 transposase in complex with left end 26-mer DNA hairpin and a 6-mer DNA representing the left end cleavage site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x DT- DA- DT- DT- DA- DC: 5'-D(*DT*DA*DT*DT*DA*DCP)-3'(Non-covalent)

DT-DA-DT-DT-DA-DC.1: 17 residues within 4Å: Chain A: C.28, Y.31, R.32, R.33, H.68 Chain B: Q.130, Y.131, I.132, E.133, N.134 Chain C: A.1, A.2, A.3, G.4, C.5, C.6, C.7 21 PLIP interactions: 15 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:Y.31, A:Y.31, A:R.32, A:S.93, A:L.110, A:W.111, A:N.113, A:S.114, B:S.13, B:H.15, B:N.16 Water bridges: A:N.113, A:S.114 Salt bridges: A:K.30, A:K.30, A:K.89, A:R.97, A:K.104, B:H.15, B:H.15 pi-Stacking: B:H.15 DT-DA-DT-DT-DA-DC.2: 16 residues within 4Å: Chain A: Q.130, Y.131, I.132, E.133, N.134 Chain B: C.28, Y.31, R.32, H.68 Chain D: A.1, A.2, A.3, G.4, C.5, C.6, C.7 Protein-ligand interaction information (PLIP) not available

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.3: 3 residues within 4Å: Chain B: N.16 Chain C: G.4, G.24 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain D: G.24 No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barabas, O. et al., Mechanism of is200/is605 Family DNA Transposases: Activation and Transposon-Directed Target Site Selection. Cell(Cambridge,Mass.) (2008)

Release Date

2008-02-19

Peptides

TRANSPOSASE ORFA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TRANSPOSASE ORFA

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