SMTL ID : 1yei.2 (3 other biounits)

CATALYTIC ANTIBODY D2.3 COMPLEX

Coordinates

PDB Format

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: 4 residues within 4Å: Chain A: D.156, H.194 Ligands: ZN.6, ZN.7 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.156, A:H.194, H2O.3, H2O.4 ZN.2: 3 residues within 4Å: Chain D: S.122, D.183 Ligands: ZN.4 No protein-ligand interaction detected (PLIP) ZN.3: 1 residues within 4Å: Chain A: H.54 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.54, H2O.1 ZN.4: 3 residues within 4Å: Chain A: H.98 Chain D: D.183 Ligands: ZN.2 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.3 ZN.5: 2 residues within 4Å: Ligands: ZN.6, ZN.7 No protein-ligand interaction detected (PLIP) ZN.6: 2 residues within 4Å: Ligands: ZN.1, ZN.5 No protein-ligand interaction detected (PLIP) ZN.7: 4 residues within 4Å: Chain A: D.156, N.195 Ligands: ZN.1, ZN.5 No protein-ligand interaction detected (PLIP) ZN.9: 4 residues within 4Å: Chain B: D.156, H.194 Ligands: ZN.14, ZN.15 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.156, B:H.194, H2O.6, H2O.7 ZN.10: 3 residues within 4Å: Chain C: S.122, D.183 Ligands: ZN.12 No protein-ligand interaction detected (PLIP) ZN.11: 1 residues within 4Å: Chain B: H.54 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.54, H2O.4 ZN.12: 3 residues within 4Å: Chain B: H.98 Chain C: D.183 Ligands: ZN.10 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: C:D.183, B:H.98, H2O.4, H2O.6 ZN.13: 2 residues within 4Å: Ligands: ZN.14, ZN.15 No protein-ligand interaction detected (PLIP) ZN.14: 2 residues within 4Å: Ligands: ZN.9, ZN.13 No protein-ligand interaction detected (PLIP) ZN.15: 4 residues within 4Å: Chain B: D.156, N.195 Ligands: ZN.9, ZN.13 No protein-ligand interaction detected (PLIP)

2 x PGG: PARA-NITROPHENYLPHOSPHONOBUTANOYL-GLYCINE(Non-covalent)

PGG.8: 8 residues within 4Å: Chain A: Y.31, 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:Y.101, A:Y.101 Hydrogen bonds: A:N.39, A:G.96, A:F.99, A:Y.101 Water bridges: A:T.97 PGG.16: 8 residues within 4Å: Chain B: Y.31, 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:Y.101, B:Y.101 Hydrogen bonds: B:N.39, B:G.96, B:F.99 Water bridges: B:T.97, B:Y.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gigant, B. et al., Crossreactivity, efficiency and catalytic specificity of an esterase-like antibody. J.Mol.Biol. (1998)

Release Date

1999-01-13

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
L

C
H

D
H

PROTEIN (IG ANTIBODY D2.3 (LIGHT CHAIN))

PROTEIN (IG ANTIBODY D2.3 (HEAVY CHAIN))

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