SMTL ID : 2jc5.1

Apurinic Apyrimidinic (AP) endonuclease (NApe) from Neisseria Meningitidis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: N.8, N.10, E.36, K.38, D.246 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.36, H2O.2, H2O.2, H2O.12, H2O.12

1 x BCN: BICINE(Non-covalent)

BCN.2: 10 residues within 4Å: Chain A: S.112, G.113, S.114, K.123, N.151, S.169, G.170, W.204, W.218, I.220 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.113, A:S.114, A:S.114, A:S.114 Water bridges: A:S.114 Salt bridges: A:K.123

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: L.2, D.30, I.31, S.73, K.74, R.75, F.100, L.103, A.258 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.74, A:R.75 Water bridges: A:A.258 GOL.4: 6 residues within 4Å: Chain A: Y.202, W.205, Y.212, A.213, D.215, K.240 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.205, A:D.215, A:K.240

2 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.5: 3 residues within 4Å: Chain A: Q.121, Y.124, E.174 No protein-ligand interaction detected (PLIP) DIO.6: 6 residues within 4Å: Chain A: Y.16, K.17, Y.21, E.22, D.47, M.48 No protein-ligand interaction detected (PLIP)

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: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

EXODEOXYRIBONUCLEASE

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