SMTL ID : 8fo4.1 (1 other biounit)

Structure of full-length amyloidogenic immunoglobulin light chain H9 in complex with 6-methyl-2-(2-((1E,2E)-3-(2-nitrophenyl)allylidene)hydrazineyl)pyrimidin-4-ol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

1 x Y4Q: 6-methyl-2-{2-[(1E)-3-(2-nitrophenyl)prop-1-en-1-yl]hydrazinyl}pyrimidin-4(5H)-one(Non-covalent)

Y4Q.1: 14 residues within 4Å: Chain A: S.36, Y.38, Q.40, P.46, Y.89, Y.93, L.99, F.101 Chain B: Y.38, P.46, Y.89, Y.93, L.99, F.101 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.38, A:Y.38, A:Y.38, A:P.46, A:Y.89, A:F.101, B:Y.93, B:F.101 Hydrogen bonds: A:S.36, A:Y.38, A:Y.38, B:Y.38

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 4 residues within 4Å: Chain A: T.108, Y.144, K.170, Y.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.144 Salt bridges: A:K.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, N.L. et al., Crystal Structures of Diaryl Hydrazone and Sulfone Stabilizers in Complex with an Amyloidogenic Light Chain Reveal an Alternate Ligand-Binding Cavity. Isr.J.Chem. (2023)

Release Date

2023-05-24

Peptides

H9 immunoglobulin light chain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H9 immunoglobulin light chain

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