SMTL ID : 9cle.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

monomer

Ligands

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

PRO-VAL-LYS-LYS-GLU.1: 17 residues within 4Å: Chain A: D.261, G.262, N.300, V.302, T.303, G.304, D.306, T.309, W.338, S.341, N.342, A.345, E.377, W.380, N.384, S.387, G.388 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:T.303, A:N.342 Hydrogen bonds: A:G.262, A:T.303, A:T.309, A:T.309, A:S.341, A:N.342, A:N.342, A:E.377 Water bridges: A:G.262, A:T.303, A:D.306, A:N.384 Salt bridges: A:K.221 PRO-VAL-LYS-LYS-GLU.2: 25 residues within 4Å: Chain A: L.85, S.86, R.87, E.88, P.91, F.119, W.123, N.127, A.129, S.130, G.131, T.132, S.133, T.136, Q.162, W.165, G.168, N.169, G.172, D.173, N.209, W.212, N.216, R.219 Ligands: DTT.10 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:E.88, A:W.123, A:W.123, A:W.165, A:W.165, A:W.212 Hydrogen bonds: A:N.127, A:N.127, A:S.130, A:Q.162, A:N.169, A:N.169, A:D.173, A:N.209, A:W.212, A:N.216, A:R.219 Water bridges: A:S.130, A:S.133

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 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.4: 1 residues within 4Å: Chain A: D.141 No protein-ligand interaction detected (PLIP) GOL.5: 2 residues within 4Å: Chain A: N.69, N.70 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.69, A:N.70 GOL.6: 5 residues within 4Å: Chain A: Q.352, V.355, E.392, Q.393, Y.396 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.352, A:Q.352 Water bridges: A:E.392, A:Q.393 GOL.7: 5 residues within 4Å: Chain A: S.133, K.137, D.173, A.176, F.177 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.133, A:S.133 Water bridges: A:D.173, A:A.176, A:F.177 GOL.8: 2 residues within 4Å: Chain A: W.57, D.61 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.61 GOL.9: 5 residues within 4Å: Chain A: H.242, H.243, L.249, Q.278, K.281 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.278, A:K.281 Water bridges: A:H.242

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

DTT.10: 5 residues within 4Å: Chain A: R.219, D.251, W.254, Y.258 Ligands: PRO-VAL-LYS-LYS-GLU-LYS-ILE-GLU-GLU.2 No protein-ligand interaction detected (PLIP) DTT.11: 3 residues within 4Å: Chain A: V.238, K.273, G.274 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.273 Water bridges: A:H.242, A:G.274

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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