SMTL ID : 8e0e.1

nbF3:CaV beta subunit 2a complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: M.168, M.169, L.276 No protein-ligand interaction detected (PLIP) GOL.3: 1 residues within 4Å: Chain A: Y.163 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.163 GOL.4: 5 residues within 4Å: Chain A: R.151, Y.326, A.329, Y.330, A.333 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.151, A:Y.326, A:A.329 Water bridges: A:Y.330 GOL.7: 3 residues within 4Å: Chain A: S.200, V.201, N.204 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.201, A:N.204 GOL.9: 3 residues within 4Å: Chain A: A.299, Q.300, C.301 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.299

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

MPD.2: 7 residues within 4Å: Chain A: M.169, K.266, L.311, E.313, Q.315, L.316, A.319 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:M.169, A:L.316, A:A.319 Hydrogen bonds: A:E.313 MPD.5: 3 residues within 4Å: Chain A: N.248, H.249, K.297 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:H.249, A:K.297 Water bridges: A:N.248 MPD.6: 2 residues within 4Å: Chain A: N.87, N.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.88 MPD.8: 6 residues within 4Å: Chain A: G.69, M.70, A.71, I.72, E.101, I.102 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.69 Water bridges: A:A.71, A:S.73

1 x CA: CALCIUM ION(Non-covalent)

CA.10: 1 residues within 4Å: Chain A: N.314 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.11: 3 residues within 4Å: Chain A: G.69, M.70, A.71 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morgenstern, T.J. et al., Selective posttranslational inhibition of Ca V beta 1 -associated voltage-dependent calcium channels with a functionalized nanobody. Nat Commun (2022)

Release Date

2023-01-18

Peptides

Voltage-dependent L-type calcium channel subunit beta-2: A
Nanobody nb.F3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Voltage-dependent L-type calcium channel subunit beta-2

Nanobody nb.F3