SMTL ID : 9clg.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

monomer

Ligands

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

PRO-VAL-LYS-LYS-GLU-LYS.1: 17 residues within 4Å: Chain A: D.261, G.262, V.302, T.303, G.304, D.306, T.309, K.334, E.335, W.338, S.341, N.342, A.345, E.377, W.380, N.384, S.387 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:W.338, A:A.345, A:W.380 Hydrogen bonds: A:T.303, A:D.306, A:T.309, A:S.341, A:N.342, A:N.342, A:N.342, A:E.377, A:E.377, A:E.377, A:N.384, A:S.387, A:S.387 Water bridges: A:D.261, A:N.300 PRO-VAL-LYS-LYS-GLU-LYS.2: 22 residues within 4Å: Chain A: S.86, 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, N.169, G.172, D.173, N.209, W.212, N.216, R.219 Ligands: DTT.10 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: 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:S.130, A:Q.162, A:N.169, A:N.169, A:D.173, A:N.209, A:N.216

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: R.219, N.220, K.221, Y.258, D.261 6 PLIP interactions: 6 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 GOL.4: 5 residues within 4Å: Chain A: T.112, Q.118, S.150, S.154, P.155 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.118, A:S.150 GOL.5: 4 residues within 4Å: Chain A: S.133, K.137, D.173, A.176 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.6: 3 residues within 4Å: Chain A: S.68, N.69, N.70 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.70 GOL.7: 4 residues within 4Å: Chain A: Q.352, V.355, E.392, Q.393 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.352, A:Q.352 GOL.8: 3 residues within 4Å: Chain A: H.242, Q.278, K.281 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.242, A:Q.278, A:K.281 Water bridges: A:H.242, A:H.242

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

DTT.9: 5 residues within 4Å: Chain A: L.71, E.72, D.113, C.114, P.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.72, A:E.72 DTT.10: 5 residues within 4Å: Chain A: R.219, D.251, W.254, Y.258 Ligands: PRO-VAL-LYS-LYS-GLU-LYS-ILE-ASP-GLU.2 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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