SMTL ID : 6c5i.1

Unliganded S25-5 Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: Q.86, P.87, N.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.88

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: G.33, R.97 Ligand excluded by PLIP

2 x NI: NICKEL (II) ION(Non-covalent)

NI.3: 1 residues within 4Å: Chain B: H.194 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.194 NI.4: 1 residues within 4Å: Chain B: C.219 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.219

2 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.5: 6 residues within 4Å: Chain A: G.42, K.43 Chain B: L.9, Y.92, G.105, G.106 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.39, A:G.44 PG0.6: 5 residues within 4Å: Chain B: D.148, I.149, H.203, K.204, S.206 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haji-Ghassemi, O. et al., Subtle Changes in the Combining Site of the Chlamydiaceae-Specific mAb S25-23 Increase the Antibody-Carbohydrate Binding Affinity by an Order of Magnitude. Biochemistry (2019)

Release Date

2019-01-09

Peptides

Fab IgG1 Heavy Chain: A
Fab IgG1 (kappa) Light Chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

Fab IgG1 Heavy Chain

Fab IgG1 (kappa) Light Chain

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