9QWO | pdb_00009qwo

Vinculin tail bound to paxillin LD2

PDB DOI: https://doi.org/10.2210/pdb9QWO/pdb

Classification: CELL ADHESION
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-04-14 Released: 2025-04-23
Deposition Author(s): Diaz-Palacios, K., Lietha, D.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.54 Å
R-Value Free:
0.259 (Depositor), 0.261 (DCC)
R-Value Work:
0.225 (Depositor), 0.233 (DCC)
R-Value Observed:
0.227 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Phospho-regulated tethering of focal adhesion kinase to vinculin links force transduction to focal adhesion signaling

Diaz-Palacios, K., Lopez Navajas, P., Rodrigo Martin, B., Matesanz, R., Luque-Ortega, J.R., Echarri, A., Lietha, D.

To be published.

Macromolecule Content

Total Structure Weight: 89.25 kDa
Atom Count: 5,922
Modelled Residue Count: 740
Deposited Residue Count: 788
Unique protein chains: 3

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 1 of Vinculin	A, B, E [auth C], F [auth D]	181	Homo sapiens	Mutation(s): 0 Gene Names: VCL
UniProt & NIH Common Fund Data Resources
Find proteins for P18206 (Homo sapiens) Go to UniProtKB: P18206
PHAROS: P18206 GTEx: ENSG00000035403
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P18206-2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform Gamma of Paxillin	C [auth E], G [auth F]	19	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P49023 (Homo sapiens) Go to UniProtKB: P49023
PHAROS: P49023 GTEx: ENSG00000089159
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P49023-3
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Paxillin	D [auth G], H	13	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for A0A1B0GTU4 (Homo sapiens) Explore A0A1B0GTU4 Go to UniProtKB: A0A1B0GTU4
GTEx: ENSG00000089159
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A1B0GTU4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain R [auth C] SDF format, chain S [auth C] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain M [auth B] SDF format, chain Q [auth C] SDF format, chain T [auth C] SDF format, chain W [auth D] MOL2 format, chain R [auth C] MOL2 format, chain S [auth C] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain M [auth B] MOL2 format, chain Q [auth C] MOL2 format, chain T [auth C] MOL2 format, chain W [auth D] mmCIF format, chain R [auth C] mmCIF format, chain S [auth C] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain M [auth B] mmCIF format, chain Q [auth C] mmCIF format, chain T [auth C] mmCIF format, chain W [auth D]	I [auth A] J [auth A] M [auth B] Q [auth C] R [auth C] I [auth A], J [auth A], M [auth B], Q [auth C], R [auth C], S [auth C], T [auth C], W [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D] Interactions & Density Focus chain I [auth A] Focus chain J [auth A] Focus chain M [auth B] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain L [auth A] SDF format, chain X [auth D] SDF format, chain Y [auth D] SDF format, chain Z [auth D] SDF format, chain K [auth A] SDF format, chain N [auth B] SDF format, chain O [auth B] SDF format, chain P [auth G] SDF format, chain U [auth C] SDF format, chain V [auth C] MOL2 format, chain L [auth A] MOL2 format, chain X [auth D] MOL2 format, chain Y [auth D] MOL2 format, chain Z [auth D] MOL2 format, chain K [auth A] MOL2 format, chain N [auth B] MOL2 format, chain O [auth B] MOL2 format, chain P [auth G] MOL2 format, chain U [auth C] MOL2 format, chain V [auth C] mmCIF format, chain L [auth A] mmCIF format, chain X [auth D] mmCIF format, chain Y [auth D] mmCIF format, chain Z [auth D] mmCIF format, chain K [auth A] mmCIF format, chain N [auth B] mmCIF format, chain O [auth B] mmCIF format, chain P [auth G] mmCIF format, chain U [auth C] mmCIF format, chain V [auth C]	K [auth A] L [auth A] N [auth B] O [auth B] P [auth G] K [auth A], L [auth A], N [auth B], O [auth B], P [auth G], U [auth C], V [auth C], X [auth D], Y [auth D], Z [auth D]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain P [auth G] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D] Interactions & Density Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain P [auth G] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D]