SMTL ID : 1u3e.1

DNA binding and cleavage by the HNH homing endonuclease I-HmuI

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.92 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain B: C.21 Chain C: G.1 Chain D: D.74, N.96 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.74, H2O.17, H2O.18

4 x SR: STRONTIUM ION(Non-functional Binders)

SR.2: 1 residues within 4Å: Ligands: EDO.12 No protein-ligand interaction detected (PLIP) SR.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SR.4: 3 residues within 4Å: Chain D: K.118, Q.120 Ligands: SR.5 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:K.118 SR.5: 3 residues within 4Å: Chain B: T.17 Chain D: K.118 Ligands: SR.4 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:K.118

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 5 residues within 4Å: Chain A: C.9 Chain C: G.5, G.6 Chain D: G.50, T.52 No protein-ligand interaction detected (PLIP) EDO.7: 4 residues within 4Å: Chain B: T.7 Chain D: R.160, I.161, H.162 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.160, D:I.161, D:H.162 EDO.8: 2 residues within 4Å: Chain D: P.128, G.130 No protein-ligand interaction detected (PLIP) EDO.9: 6 residues within 4Å: Chain D: K.4, K.7, H.62, F.63, C.64, E.65 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.4, D:K.7, D:C.64, D:C.64 EDO.10: 4 residues within 4Å: Chain A: A.19, G.20 Chain B: G.15, C.16 No protein-ligand interaction detected (PLIP) EDO.11: 1 residues within 4Å: Chain B: G.8 No protein-ligand interaction detected (PLIP) EDO.12: 5 residues within 4Å: Chain A: C.26, C.27 Chain B: A.11, A.12 Ligands: SR.2 No protein-ligand interaction detected (PLIP)

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.13: 2 residues within 4Å: Chain D: W.3, Q.14 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.14 Water bridges: D:W.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shen, B.W. et al., DNA Binding and Cleavage by the HNH Homing Endonuclease I-HmuI. J.Mol.Biol. (2004)

Release Date

2004-08-31

Peptides

HNH homing endonuclease: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
M

HNH homing endonuclease