SMTL ID : 1yef.1

STRUCTURE OF IGG2A FAB FRAGMENT (D2.3) COMPLEXED WITH SUBSTRATE ANALOGUE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

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

ZN.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ZN.2: 3 residues within 4Å: Chain A: F.99 Ligands: ZN.4, PNC.9 No protein-ligand interaction detected (PLIP) ZN.3: 2 residues within 4Å: Chain A: H.54 Chain B: D.107 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.54, B:D.107, B:D.107, H2O.2, H2O.2 ZN.4: 3 residues within 4Å: Chain A: H.98 Ligands: ZN.2, ZN.8 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.98, H2O.2, H2O.4 ZN.5: 3 residues within 4Å: Chain A: D.156, H.194 Ligands: ZN.6 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.156, A:H.194, H2O.2 ZN.6: 2 residues within 4Å: Ligands: ZN.5, ZN.7 No protein-ligand interaction detected (PLIP) ZN.7: 1 residues within 4Å: Ligands: ZN.6 No protein-ligand interaction detected (PLIP) ZN.8: 1 residues within 4Å: Ligands: ZN.4 No protein-ligand interaction detected (PLIP)

1 x PNC: PARA-NITROBENZYL GLUTARYL GLYCINIC ACID(Non-covalent)

PNC.9: 16 residues within 4Å: Chain A: Y.31, N.39, V.94, G.96, T.97, Y.101, F.103 Chain B: H.35, V.37, W.47, T.97, W.99, F.101, Y.108, W.113 Ligands: ZN.2 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:V.94, A:Y.101, B:F.101 Hydrogen bonds: A:Y.31, A:N.39, A:G.96, A:Y.101, B:Y.108 Water bridges: A:Y.101, B:R.50, B:R.50 pi-Stacking: B:W.99, B:W.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gigant, B. et al., X-ray structures of a hydrolytic antibody and of complexes elucidate catalytic pathway from substrate binding and transition state stabilization through water attack and product release. Proc.Natl.Acad.Sci.USA (1997)

Release Date

1997-12-03

Peptides

IGG2A FAB FRAGMENT: A
IGG2A FAB FRAGMENT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

IGG2A FAB FRAGMENT

IGG2A FAB FRAGMENT

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