SMTL ID : 9dvr.1

Cryo-EM structure of Human Fibroblast Activation Protein alpha dimer with two SUMO-I3 VHHs bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.70 Å

Oligo State

hetero-2-2-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.23, G.24, T.25 No protein-ligand interaction detected (PLIP) NAG.2: 3 residues within 4Å: Chain A: D.47, N.49, N.66 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.49 NAG.3: 5 residues within 4Å: Chain A: N.160, I.166, E.199, N.201, T.203 No protein-ligand interaction detected (PLIP) NAG.4: 4 residues within 4Å: Chain A: V.286, N.288, E.315, S.316 No protein-ligand interaction detected (PLIP) NAG.5: 6 residues within 4Å: Chain B: V.286, N.288, E.315, S.316, R.317, R.564 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.288 NAG.6: 5 residues within 4Å: Chain B: N.160, I.166, E.199, N.201, T.203 No protein-ligand interaction detected (PLIP) NAG.7: 3 residues within 4Å: Chain B: D.47, N.49, N.66 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:D.47 Hydrogen bonds: B:N.49 NAG.8: 3 residues within 4Å: Chain B: N.23, G.24, T.25 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, Z. et al., Cryo-electron microscopy reveals a single domain antibody with a unique binding epitope on fibroblast activation protein alpha. Rsc Chem Biol (2025)

Release Date

2025-02-26

Peptides

Antiplasmin-cleaving enzyme FAP, soluble form: AB
SUMO-I3: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

D
H

Antiplasmin-cleaving enzyme FAP, soluble form

SUMO-I3

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