SMTL ID : 9qwo.1

Vinculin tail bound to paxillin LD2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

hetero-4-2-2-mer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: R.25, K.26 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.25, A:K.26 SO4.2: 4 residues within 4Å: Chain A: W.179, Y.180 Chain E: R.18 Ligands: ACT.13 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A Water bridges: E:R.18 Salt bridges: E:R.18 Hydrogen bonds: A:W.179 SO4.5: 6 residues within 4Å: Chain A: K.30, R.172 Chain B: H.21, R.25, K.39 Ligands: ACT.7 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.172 Salt bridges: A:K.30, B:H.21, B:K.39 Water bridges: B:H.21, B:H.21 SO4.9: 2 residues within 4Å: Chain E: R.25, K.26 2 PLIP interactions: 2 interactions with chain E Salt bridges: E:R.25, E:K.26 SO4.10: 6 residues within 4Å: Chain E: W.27, S.28, S.29, K.30, K.39, K.176 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:S.29, E:K.30 Water bridges: E:K.39, E:K.39 Salt bridges: E:K.39, E:K.176 SO4.11: 6 residues within 4Å: Chain B: E.136 Chain E: G.55, G.57, T.58, K.59, R.60 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:G.57, E:T.58, E:T.58, E:K.59, E:R.60 SO4.12: 4 residues within 4Å: Chain E: K.30 Chain F: H.21, R.25, K.39 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E Salt bridges: F:H.21, F:K.39, E:K.30 SO4.15: 4 residues within 4Å: Chain E: K.30 Chain F: S.28, S.29, K.39 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:S.28, F:S.29 Salt bridges: F:K.39, E:K.30

10 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: R.175, Q.181 Chain B: I.9, M.14, A.46 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Salt bridges: A:R.175 Hydrophobic interactions: B:I.9 ACT.4: 2 residues within 4Å: Chain A: K.39, K.176 4 PLIP interactions: 4 interactions with chain A Water bridges: A:S.29, A:S.29 Salt bridges: A:K.39, A:K.176 ACT.6: 2 residues within 4Å: Chain B: H.21, L.43 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.21 ACT.7: 5 residues within 4Å: Chain A: K.30 Chain B: S.28, S.29, K.39 Ligands: SO4.5 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:K.30, B:K.39 Hydrogen bonds: B:S.29 ACT.8: 4 residues within 4Å: Chain B: R.60 Chain D: D.10, L.11, S.13 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:L.11, D:S.13 Salt bridges: B:R.60 ACT.13: 4 residues within 4Å: Chain A: W.179 Chain E: H.21, R.25 Ligands: SO4.2 3 PLIP interactions: 3 interactions with chain E Salt bridges: E:H.21, E:R.25, E:K.176 ACT.14: 8 residues within 4Å: Chain E: R.175, Q.181 Chain F: I.9, M.14, A.46, R.50 Chain G: E.5, L.9 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain F Salt bridges: E:R.175 Hydrophobic interactions: F:I.9, F:R.50 ACT.16: 6 residues within 4Å: Chain A: A.61, Q.64 Chain F: P.12, M.15, A.16, Q.143 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain F Hydrophobic interactions: A:A.61, F:M.15, F:Q.143 Salt bridges: A:R.60 ACT.17: 5 residues within 4Å: Chain F: R.18, H.21, A.42, L.43, A.46 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:H.21, F:A.42 Salt bridges: F:H.21 Hydrogen bonds: E:Q.181 ACT.18: 4 residues within 4Å: Chain F: R.60 Chain H: D.10, L.11, S.13 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain H Hydrophobic interactions: F:R.60 Salt bridges: F:R.60 Hydrogen bonds: H:S.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diaz-Palacios, K. et al., Phospho-regulated tethering of focal adhesion kinase to vinculin links force transduction to focal adhesion signaling. Cell Commun Signal (2025)

Release Date

2025-04-23

Peptides

Isoform 1 of Vinculin: ABEF
Isoform Gamma of Paxillin: CG
Paxillin: DH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
C

F
D

C
E

G
F

D
G

H
H

Isoform 1 of Vinculin

Isoform Gamma of Paxillin

Paxillin