SMTL ID : 6c5j.1

S25-23 Fab in complex with Chlamydiaceae LPS (Crystal form 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GP1- Z9M- KDO- KDO- KDO: 3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid-(2-8)-3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid-(2-4)-3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid-(2-6)-2-amino-2-deoxy-4-O-phosphono-beta-D-glucopyranose-(1-6)-2-amino-2-deoxy-1-O-phosphono-alpha-D-glucopyranose

GP1-Z9M-KDO-KDO-KDO.1: 17 residues within 4Å: Chain A: T.31, Y.32, G.33, W.52, S.53, G.54, G.55, T.56, R.97, R.99, T.101, T.102 Chain B: H.31, K.32, N.33, Y.37, Y.101 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.31, A:G.33, A:T.101, B:N.33 Water bridges: A:R.97, A:R.97, A:R.99, A:T.101 Salt bridges: A:R.97, A:R.99

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

NAG.2: 3 residues within 4Å: Chain A: R.38, K.43, N.88 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.43, A:N.88

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

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

IgG1 Fab Heavy Chain

IgG1 Fab Light Chain (Kappa)

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