SMTL ID : 2dch.2 (1 other biounit)

Crystal structure of archaeal intron-encoded homing endonuclease I-Tsp061I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-trimer

Ligands

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 5 residues within 4Å: Chain A: Y.143, I.144, W.189, L.215, F.216 Ligand excluded by PLIP CL.4: 5 residues within 4Å: Chain B: Y.143, I.144, W.189, L.215, F.216 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain C: Y.143, I.144, W.189, L.215, F.216 Ligand excluded by PLIP

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: S.12, G.13, L.14 Chain B: R.145 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.143, A:G.13, A:L.14 Water bridges: B:R.145, B:S.171, B:S.171, B:S.171, B:D.184 Salt bridges: B:R.145 SO4.3: 3 residues within 4Å: Chain A: K.22, D.114 Chain B: R.172 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Water bridges: B:N.164, B:N.164 Salt bridges: B:R.172, A:K.22 Hydrogen bonds: A:D.114, A:D.114 SO4.5: 4 residues within 4Å: Chain B: S.12, G.13, L.14 Chain C: R.145 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:Y.143, B:G.13, B:L.14 Water bridges: C:R.145, C:S.171, C:S.171, C:S.171, C:D.184 Salt bridges: C:R.145 SO4.6: 3 residues within 4Å: Chain B: K.22, D.114 Chain C: R.172 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain B Water bridges: C:N.164, C:N.164 Salt bridges: C:R.172, B:K.22 Hydrogen bonds: B:D.114, B:D.114 SO4.8: 4 residues within 4Å: Chain A: R.145 Chain C: S.12, G.13, L.14 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:Y.143, C:G.13, C:L.14 Water bridges: A:R.145, A:S.171, A:S.171, A:S.171, A:D.184 Salt bridges: A:R.145 SO4.9: 3 residues within 4Å: Chain A: R.172 Chain C: K.22, D.114 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Water bridges: A:N.164, A:N.164 Salt bridges: A:R.172, C:K.22 Hydrogen bonds: C:D.114, C:D.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakayama, H. et al., Structure of a hyperthermophilic archaeal homing endonuclease, I-Tsp061I: contribution of cross-domain polar networks to thermostability. J.Mol.Biol. (2007)

Release Date

2006-07-06

Peptides

putative homing endonuclease: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
X

C
X

putative homing endonuclease

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