SMTL ID : 6lyn.2 (1 other biounit)

CD146 D4-D5/AA98 Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.78 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.1: 10 residues within 4Å: Chain A: S.32, G.33, Y.34, S.35, L.54, S.56, N.57 Chain B: Q.86, L.87, D.141 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.33, A:S.35, A:S.56, A:N.57

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

NAG.2: 2 residues within 4Å: Chain B: G.81, N.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.83 Water bridges: B:G.81 NAG.3: 6 residues within 4Å: Chain B: R.64, P.95, P.96, M.98, K.101, N.173 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.64, B:M.98, B:M.98, B:K.101, B:N.173

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

CL.4: 1 residues within 4Å: Chain B: S.25 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: I.92, Q.143 Ligand excluded by PLIP

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 4 residues within 4Å: Chain C: Y.27, I.28, N.31, Y.32 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:I.28, C:N.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Structure basis for AA98 inhibition on the activation of endothelial cells mediated by CD146. Iscience (2021)

Release Date

2021-02-24

Peptides

AA98 Fab light chain: A
Cell surface glycoprotein MUC18: B
AA98 Fab heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
D

C
H

AA98 Fab light chain

Cell surface glycoprotein MUC18

AA98 Fab heavy chain

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