SMTL ID : 2jc4.1

3'-5' exonuclease (NExo) from Neisseria Meningitidis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: N.9, E.34, K.36 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.34, H2O.2, H2O.2, H2O.11, H2O.11

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.3: 1 residues within 4Å: Chain A: V.234 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.234, A:V.234

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.4: 4 residues within 4Å: Chain A: F.208, Q.209, K.211, L.236 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.211

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 5 residues within 4Å: Chain A: N.108, N.148, H.167, W.200, I.216 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.200, A:I.216 Hydrogen bonds: A:N.108, A:W.200 Salt bridges: A:H.167

1 x 2HP: DIHYDROGENPHOSPHATE ION(Non-covalent)

2HP.6: 2 residues within 4Å: Chain A: Y.62, K.116 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.88, A:Q.88 Water bridges: A:N.63, A:Q.88, A:K.116, A:K.116, A:K.116, A:K.116 Salt bridges: A:K.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carpenter, E.P. et al., Ap Endonuclease Paralogues with Distinct Activities in DNA Repair and Bacterial Pathogenesis. Embo J. (2007)

Release Date

2007-03-06

Peptides

EXODEOXYRIBONUCLEASE III: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

EXODEOXYRIBONUCLEASE III