SMTL ID : 9ezw.4 (3 other biounits)

Structure of the single-domain antibody VHH_h3 in complex with human Vsig4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: Q.32, V.33, L.34, R.51, D.52, S.53 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.32, A:D.52 Water bridges: A:R.51, A:R.51, A:S.53 EDO.2: 5 residues within 4Å: Chain A: R.51, D.52, G.55, D.56, H.71 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.52 EDO.3: 4 residues within 4Å: Chain A: R.41, V.46, K.62, Y.63 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.41, A:K.62, A:Y.63 EDO.5: 2 residues within 4Å: Chain B: E.113, Y.114 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.113

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 7 residues within 4Å: Chain A: L.34, K.36, E.95, T.97, V.107 Chain B: R.103, Y.104 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.36, A:E.95, A:T.97 Water bridges: B:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Markovic, I. et al., Structure of the single-domain antibody VHH_h1 in complex with human Vsig4. To Be Published

Release Date

2025-10-29

Peptides

V-set and immunoglobulin domain-containing protein 4: A
single-domain antibody VHH_h3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

V-set and immunoglobulin domain-containing protein 4

single-domain antibody VHH_h3

Related Entries With Identical Sequence