SMTL ID : 9clf.1

Importin alpha isoform 2 with synthetic zero net-charge nuclear localization signal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.36 Å

Oligo State

monomer

Ligands

2 x PRO- GLU- LYS- LYS- PRO- LYS: Zero net-charge NLS(Non-covalent)

PRO-GLU-LYS-LYS-PRO-LYS.1: 14 residues within 4Å: Chain A: D.261, V.302, T.303, G.304, D.306, T.309, K.334, E.335, W.338, N.342, A.345, E.377, W.380, S.387 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.338, A:N.342, A:W.380 Hydrogen bonds: A:D.306, A:T.309, A:T.309, A:E.335, A:N.342, A:N.342, A:E.377, A:S.387, A:S.387 PRO-GLU-LYS-LYS-PRO-LYS.2: 21 residues within 4Å: Chain A: S.86, E.88, F.119, W.123, N.127, A.129, S.130, G.131, T.132, S.133, T.136, Q.162, W.165, N.169, G.172, D.173, N.209, W.212, N.216, R.219 Ligands: DTT.6 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:E.88, A:W.123, A:W.165, A:W.165, A:W.212 Hydrogen bonds: A:N.127, A:N.127, A:Q.162, A:N.169, A:N.169, A:D.173, A:N.209, A:N.216, A:R.219 Water bridges: A:R.82, A:S.86, A:D.173 Salt bridges: A:R.82

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: Q.352, V.355, E.392, Q.393 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.352, A:E.392 Water bridges: A:E.392, A:Y.396 GOL.4: 5 residues within 4Å: Chain A: R.219, N.220, K.221, Y.258, D.261 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.219, A:N.220, A:Y.258, A:D.261, A:D.261 Water bridges: A:R.296, A:R.296 GOL.5: 4 residues within 4Å: Chain A: H.242, H.243, Q.278, K.281 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.242, A:Q.278, A:Q.278, A:K.281

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.6: 5 residues within 4Å: Chain A: R.219, D.251, W.254, Y.258 Ligands: PRO-GLU-LYS-LYS-PRO-LYS-ILE-ASP-GLU.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.219, A:R.219 Water bridges: A:D.251 DTT.7: 4 residues within 4Å: Chain A: V.238, H.242, K.273, G.274 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abdoli, A. et al., Probing the extent of importin-alpha targeting of the TAF8 NLS by eliminating its cationic net-charge. Protein Sci. (2025)

Release Date

2025-09-03

Peptides

Importin subunit alpha-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Importin subunit alpha-1

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