SMTL ID : 5a0m.2 (1 other biounit)

THE CRYSTAL STRUCTURE OF I-SCEI IN COMPLEX WITH ITS TARGET DNA IN THE PRESENCE OF MN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

DC-DC-DC-DT-DA-DG-DC-DG-DT.1: 24 residues within 4Å: Chain A: D.44, D.144, D.145, G.146, G.147, Y.151, N.152, N.163, N.192, K.223 Chain B: A.2, C.3, G.4, C.5, T.6, A.7, G.8, G.9, G.10, A.13, A.14 Chain C: T.16 Ligands: MN.3, MN.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.92, A:Y.46, A:Y.46 Hydrogen bonds: A:E.61, A:K.63, A:R.88, A:N.90, A:N.152, A:N.152, A:N.157, A:N.192, A:K.193, A:E.61, A:K.86, A:K.86, A:D.145, A:S.166 Water bridges: A:D.150 Salt bridges: A:K.63, A:K.190, A:K.122 pi-Cation interactions: A:K.193

4 x MN: MANGANESE (II) ION(Non-covalent)(Non-functional Binders)

MN.2: 5 residues within 4Å: Chain A: L.42, G.43, D.145 Chain D: C.1 Ligands: MN.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.43, A:D.145 MN.3: 9 residues within 4Å: Chain A: D.44, D.144, D.145 Chain B: A.14 Chain C: T.16 Chain D: C.1 Ligands: DC-DC-DC-DT-DA-DG-DC-DG-DT.1, MN.2, MN.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.44, A:D.145 MN.4: 5 residues within 4Å: Chain A: D.44, D.144 Chain B: A.14 Ligands: DC-DC-DC-DT-DA-DG-DC-DG-DT.1, MN.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.44, A:D.144 MN.5: 3 residues within 4Å: Chain C: A.15, T.16 Chain D: C.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prieto, J. et al., Structure of the I-Scei Nuclease Complexed with its DsDNA Target and Three Catalytic Metal Ions. Acta Crystallogr.,Sect.F (2016)

Release Date

2016-05-04

Peptides

INTRON-ENCODED ENDONUCLEASE I-SCEI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

INTRON-ENCODED ENDONUCLEASE I-SCEI