SMTL ID : 7a4t.1

Crystal structure of the GCN coiled-coil in complex with nanobody Nb39

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

hetero-1-2-mer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: S.7, G.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.7, A:G.8 SO4.2: 6 residues within 4Å: Chain A: A.60, D.61, S.62 Chain C: H.16, E.20, R.23 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Salt bridges: C:H.16, C:R.23 Hydrogen bonds: A:D.61, A:S.62 SO4.3: 4 residues within 4Å: Chain A: W.100, G.105, D.106 Chain B: K.6 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:W.100 Water bridges: A:G.105, A:D.106, A:D.106 Salt bridges: B:K.6 SO4.6: 2 residues within 4Å: Chain B: H.16, N.19 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.19 Water bridges: B:E.20 Salt bridges: B:H.16

1 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.4: 4 residues within 4Å: Chain A: F.29, S.30, T.101, T.103 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.101 Hydrogen bonds: A:S.30

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

EDO.5: 2 residues within 4Å: Chain A: T.57, Y.59 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.57 Water bridges: A:T.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Majerle, A. et al., A nanobody toolbox targeting dimeric coiled-coil modules for functionalization of designed protein origami structures. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-05-05

Peptides

Nanobody Nb39: A
GCN4 isoform 1: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Nanobody Nb39

GCN4 isoform 1