8YR7: PDB entry 8YR7

Crystal structure of human dishevelled 2 (Dvl2) PDZ domain fused with WGEF internal peptide motif. Determined by X-ray diffraction at 3.0 Å resolution. Released 29 May 2024.

Method: X-ray diffraction
Resolution: 3.0 Å
Organisms: synthetic construct, Homo sapiens
Chains: 1
Atoms: 511
Mol. weight: 11.61 kDa
Released: 29 May 2024

Explore 8YR7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8YR7 contains 2 α-helices and 6 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 2 helices, 6 β-strands

Element	Residues	Length	Sheet
β-strand	265-266	2	1
β-strand	280-284	5	1
β-strand	294-299	6	1
α-helix	304-308	5
β-strand	316-320	5	1
β-strand	323-324	2	1
α-helix	330-340	11
β-strand	349-352	4	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Segment polarity protein dishevelled homolog DVL-2,Rho guanine nucleotide exchange factor 19	A	protein	109	synthetic construct, Homo sapiens	O14641 (AlphaFold model), Q8IW93 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>8YR7_1 Segment polarity protein dishevelled homolog DVL-2,Rho guanine nucleotide exchange factor 19 (chains A)
SMSLNIITVTLNMEKYNFLGISIVGQSNERGDGGIYIGSIMKGGAVAADGRIEPGDMLLQ
VNDMNFENMSNDDAVRVLRDIVHKPGPIVLTVAKSGGGGSTFSLWQDIP

Primary citation

Dishevelled2 activates WGEF via its interaction with a unique internal peptide motif of the GEF. Omble, A., Mahajan, S., Bhoite, A. et al. Commun Biol (2024) 7:543-543. DOI 10.1038/s42003-024-06194-6 · PubMed

Other PDB entries of the same protein (UniProt O14641 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3CBZ 1.38 Å, The Dvl2 PDZ Domain in Complex with the N2 Inhibitory Peptide
3CBY 1.5 Å, The Dvl2 PDZ Domain in Complex with the N1 Inhibitory Peptide
2REY 1.55 Å, Crystal structure of the PDZ domain of human dishevelled 2 (homologous to Drosophila dsh)
6IW3 1.64 Å, High resolution structure of Dvl2-DIX Y27W/C80S mutant
3CBX 1.7 Å, The Dvl2 PDZ Domain in Complex with the C1 Inhibitory Peptide
3CC0 1.75 Å, The Dvl2 PDZ Domain in Complex with the N3 Inhibitory Peptide
8WWR 1.75 Å, Crystal structure of apo human dishevelled 2 (Dvl2) PDZ domain
5SUZ 1.84 Å, Domain-swapped dimer of human Dishevelled2 DEP domain: C-centered monoclinic crystal…
5SUY 1.88 Å, Domain-swapped dimer of human Dishevelled2 DEP domain: monoclinic crystal form…
35UG 1.95 Å, Human DVL2 PDZ domain in complex with Vangl2
5LNP 1.99 Å, Domain-swapped dimer of human Dishevelled2 DEP domain: monoclinic crystal form…
4WIP 2.69 Å, DIX domain of human Dvl2

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