SMTL ID : 1kn4.3 (3 other biounits)

CATALYTIC ANTIBODY D2.3 COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

14 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.1: 2 residues within 4Å: Chain A: H.54, K.58 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.54 ZN.2: 3 residues within 4Å: Chain A: H.98 Chain D: D.183 Ligands: ZN.7 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: A:H.98, D:D.183, H2O.1, H2O.1 ZN.3: 4 residues within 4Å: Chain A: D.156, H.194 Ligands: ZN.5, ZN.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.156, A:H.194, H2O.2, H2O.2 ZN.4: 2 residues within 4Å: Ligands: ZN.5, ZN.6 No protein-ligand interaction detected (PLIP) ZN.5: 2 residues within 4Å: Ligands: ZN.3, ZN.4 No protein-ligand interaction detected (PLIP) ZN.6: 3 residues within 4Å: Chain A: R.193 Ligands: ZN.3, ZN.4 No protein-ligand interaction detected (PLIP) ZN.7: 3 residues within 4Å: Chain D: S.122, D.183 Ligands: ZN.2 No protein-ligand interaction detected (PLIP) ZN.9: 2 residues within 4Å: Chain B: H.54, K.58 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.54 ZN.10: 3 residues within 4Å: Chain B: H.98 Chain C: D.183 Ligands: ZN.15 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: B:H.98, C:D.183, H2O.4, H2O.4 ZN.11: 4 residues within 4Å: Chain B: D.156, H.194 Ligands: ZN.13, ZN.14 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.156, B:H.194, H2O.5, H2O.6 ZN.12: 2 residues within 4Å: Ligands: ZN.13, ZN.14 No protein-ligand interaction detected (PLIP) ZN.13: 2 residues within 4Å: Ligands: ZN.11, ZN.12 No protein-ligand interaction detected (PLIP) ZN.14: 3 residues within 4Å: Chain B: R.193 Ligands: ZN.11, ZN.12 No protein-ligand interaction detected (PLIP) ZN.15: 3 residues within 4Å: Chain C: S.122, D.183 Ligands: ZN.10 No protein-ligand interaction detected (PLIP)

2 x PDE: PARA-NITROPHENYL PHOSPHONOBUTANOYL D-ALANINE(Non-covalent)

PDE.8: 7 residues within 4Å: Chain A: Y.37, N.39, V.94, G.96, F.99, Y.101, F.103 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.37, A:V.94, A:F.99, A:Y.101, A:Y.101 Hydrogen bonds: A:N.39, A:G.96, A:Y.101, A:Y.101 PDE.16: 7 residues within 4Å: Chain B: Y.37, N.39, V.94, G.96, F.99, Y.101, F.103 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.37, B:V.94, B:F.99, B:Y.101, B:Y.101 Hydrogen bonds: B:N.39, B:G.96, B:Y.101 Water bridges: B:Y.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

D'Souza, L.J. et al., Remarkable remote chiral recognition in a reaction mediated by a catalytic antibody. J.Am.Chem.Soc. (2002)

Release Date

2002-03-13

Peptides

IG ANTIBODY D2.3 (LIGHT CHAIN): AB
IG ANTIBODY D2.3 (HEAVY CHAIN): CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
L

C
H

D
H

IG ANTIBODY D2.3 (LIGHT CHAIN)

IG ANTIBODY D2.3 (HEAVY CHAIN)

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