SMTL ID : 7axx.1

Structure of WDR5:CS-VIP8 crystal after illumination at 405 nm and room temperature

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

1 x ARG- ABA- DPN: ALQ-4FO-R-ABA-DPN-EDN-XY4(Non-covalent)

ARG-ABA-DPN.1: 16 residues within 4Å: Chain A: A.47, V.48, S.49, S.91, F.133, S.175, K.259, Y.260, C.261, F.263, I.305, L.321 Ligands: ALQ.2, 4FO.3, EDN.4, S7Z.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:A.47, A:F.133, A:I.305 Hydrogen bonds: A:S.91, A:S.175, A:C.261 Water bridges: A:Y.260 Salt bridges: A:D.92 pi-Stacking: A:Y.260

1 x ALQ: 2-METHYL-PROPIONIC ACID(Non-covalent)

ALQ.2: 9 residues within 4Å: Chain A: A.65, G.89, I.90, S.91, D.107 Ligands: ARG-ABA-DPN.1, ARG-ABA-DPN.1, ARG-ABA-DPN.1, 4FO.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.65

1 x 4FO: (2R)-2,4-diaminobutanoic acid(Non-covalent)

4FO.3: 10 residues within 4Å: Chain A: S.91, D.107, Y.131, F.133, F.149 Ligands: ARG-ABA-DPN.1, ARG-ABA-DPN.1, ARG-ABA-DPN.1, ALQ.2, S7Z.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.107

1 x EDN: ETHANE-1,2-DIAMINE(Non-functional Binders)

EDN.4: 3 residues within 4Å: Ligands: ARG-ABA-DPN.1, ARG-ABA-DPN.1, S7Z.5 No protein-ligand interaction detected (PLIP)

1 x S7Z: (E)-(4-((2,6-difluoro-4-(hydroxymethyl)phenyl)diazenyl)-2,6-difluorophenyl)methanol(Non-covalent)

S7Z.5: 4 residues within 4Å: Chain A: F.149 Ligands: ARG-ABA-DPN.1, 4FO.3, EDN.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Albert, L. et al., Bistable Photoswitch Allows in Vivo Control of Hematopoiesis. Acs Cent.Sci. (2022)

Release Date

2021-12-15

Peptides

WD repeat-containing protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

WD repeat-containing protein 5

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