Crystal structure of T-cell lymphoma invasion and metastasis-1 PDZ in complex with phosphorylated SYNDECAN1 peptide

Structure

x-ray diffraction · 2 distinct chains · 15% helix, 41% strand (DSSP).

Ligands and binding sites

• ANS · 5-(dimethylamino)-1-naphthalenesulfonic acid(dansyl acid) · ligand · chains A, B
• NA · Sodium ion · metal · chains B
• CL · Chloride ion · ion · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

1 interface between chains.

• A–B · 625 Ų buried · 19 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 covalent, 1 modified (covalent ligand, phosphorylation).

Compared structures

• 4GVC · Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
• Q13009 · AlphaFold monomer V2.0 prediction for T-lymphoma invasion and metastasis-inducing protein… · a predicted model of the same protein · chain A against A, TM-score 0.89
• P18827 · AlphaFold monomer V2.0 prediction for syndecan-1 (P18827) · a predicted model of the same protein · chain B against A, TM-score 0.43

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt Q13009
• Every structure of UniProt P18827
• Elsewhere: RCSB PDB 4GVC · PDBe 4GVC · UniProt Q13009 · UniProt P18827