SMTL ID : 9d41.1

Crystal structure of N-terminal domain of Borealin (20-88) in complex with synthetic antibody fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

hetero-1-1-1-mer

Ligands

10 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 1 residues within 4Å: Chain A: Y.35 No protein-ligand interaction detected (PLIP) MPD.2: 3 residues within 4Å: Chain A: L.28, K.29, D.32 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.32 MPD.4: 7 residues within 4Å: Chain A: D.53, Y.54, L.57 Chain B: V.104, S.105, G.106, W.107 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:D.53, A:L.57, B:V.104 Hydrogen bonds: A:N.50, B:S.105 Water bridges: B:W.107 MPD.5: 2 residues within 4Å: Chain B: W.107, W.108 No protein-ligand interaction detected (PLIP) MPD.6: 7 residues within 4Å: Chain B: L.201, G.202, T.203, Q.204, T.205, K.222, E.224 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.203, B:K.222, B:E.224 MPD.7: 2 residues within 4Å: Chain B: N.126, Q.127 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Q.127 MPD.8: 3 residues within 4Å: Chain B: W.109 Chain C: Y.50, S.54 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:W.109, C:Y.50 Hydrogen bonds: C:S.54, C:S.54 MPD.9: 6 residues within 4Å: Chain C: V.151, A.154, Q.156, L.182, D.186, H.190 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:V.151, C:A.154, C:L.182 Hydrogen bonds: C:Q.156 Water bridges: C:N.159 MPD.10: 3 residues within 4Å: Chain C: T.198, T.201, S.203 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:T.198 MPD.11: 5 residues within 4Å: Chain C: K.108, R.109, K.170, D.171, S.172 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:R.109 Hydrogen bonds: C:S.172

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

CL.3: 2 residues within 4Å: Chain B: R.22, S.74 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Filippova, E.V. et al., Crystal structure of N-terminal domain of Borealin (20-88) in complex with synthetic antibody fragment. To Be Published

Release Date

2025-08-20

Peptides

Borealin: A
Fab Heavy Chain: B
Fab Light Chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Borealin

Fab Heavy Chain

Fab Light Chain