SMTL ID : 6r15.1

Crystal structure of the SUN1-KASH1 6:6 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

hetero-6-6-mer

Ligands

6 x K: POTASSIUM ION(Non-covalent)

K.1: 7 residues within 4Å: Chain A: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.75, A:Q.78, A:D.80, A:Y.193, H2O.7 K.4: 7 residues within 4Å: Chain C: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:V.75, C:Q.78, C:D.80, C:Y.193, H2O.16 K.7: 7 residues within 4Å: Chain E: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:V.75, E:Q.78, E:D.80, E:Y.193, H2O.25 K.10: 7 residues within 4Å: Chain G: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:V.75, G:Q.78, G:D.80, G:Y.193, H2O.34 K.13: 7 residues within 4Å: Chain I: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:V.75, I:Q.78, I:D.80, I:Y.193, H2O.43 K.16: 7 residues within 4Å: Chain K: V.75, Q.78, D.80, I.81, N.85, Y.193, R.194 5 PLIP interactions: 4 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:V.75, K:Q.78, K:D.80, K:Y.193, H2O.52

6 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 6 residues within 4Å: Chain A: L.23, K.28, T.29, L.159, M.161 Chain E: N.18 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.159 PGE.5: 6 residues within 4Å: Chain A: N.18 Chain C: L.23, K.28, T.29, L.159, M.161 1 PLIP interactions: 1 interactions with chain C Water bridges: C:L.159 PGE.8: 6 residues within 4Å: Chain C: N.18 Chain E: L.23, K.28, T.29, L.159, M.161 1 PLIP interactions: 1 interactions with chain E Water bridges: E:L.159 PGE.11: 6 residues within 4Å: Chain G: L.23, K.28, T.29, L.159, M.161 Chain K: N.18 1 PLIP interactions: 1 interactions with chain G Water bridges: G:L.159 PGE.14: 6 residues within 4Å: Chain G: N.18 Chain I: L.23, K.28, T.29, L.159, M.161 1 PLIP interactions: 1 interactions with chain I Water bridges: I:L.159 PGE.17: 6 residues within 4Å: Chain I: N.18 Chain K: L.23, K.28, T.29, L.159, M.161 1 PLIP interactions: 1 interactions with chain K Water bridges: K:L.159

6 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 7 residues within 4Å: Chain A: L.58, P.65, L.66, W.67, Y.68 Chain I: W.67 Ligands: EPE.15 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.68 EPE.6: 7 residues within 4Å: Chain C: L.58, P.65, L.66, W.67, Y.68 Chain G: W.67 Ligands: EPE.12 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Y.68 EPE.9: 7 residues within 4Å: Chain E: L.58, P.65, L.66, W.67, Y.68 Chain K: W.67 Ligands: EPE.18 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Y.68 EPE.12: 7 residues within 4Å: Chain C: W.67 Chain G: L.58, P.65, L.66, W.67, Y.68 Ligands: EPE.6 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:Y.68 EPE.15: 7 residues within 4Å: Chain A: W.67 Chain I: L.58, P.65, L.66, W.67, Y.68 Ligands: EPE.3 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:Y.68 EPE.18: 7 residues within 4Å: Chain E: W.67 Chain K: L.58, P.65, L.66, W.67, Y.68 Ligands: EPE.9 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:Y.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gurusaran, M. et al., A molecular mechanism for LINC complex branching by structurally diverse SUN-KASH 6:6 assemblies. Elife (2021)

Release Date

2020-04-01

Peptides

SUN domain-containing protein 1: ACEGIK
Nesprin-1: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

I
A

K
A

B
B

D
B

F
B

H
B

J
B

L
B

SUN domain-containing protein 1

Nesprin-1

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