8Q9N: MADS-box/MEF2 Domain of MEF2D

Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and MITR deacetylase binding motif mutant L151V. Determined by X-ray diffraction at 1.51 Å resolution. Released 26 Jun 2024.

Method: X-ray diffraction
Resolution: 1.51 Å
Organism: Homo sapiens
Chains: 5
Atoms: 2,454
Mol. weight: 33.22 kDa
Released: 26 Jun 2024

Explore 8Q9N in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8Q9N contains 7 α-helices and 6 β-strands across 3 chains. 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: 3 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	14-39	26
β-strand	42-48	7	1
β-strand	54-58	5	1
α-helix	62-71	10
β-strand	77-80	4	1
α-helix	81-91	11

Chain B: 3 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	14-39	26
β-strand	42-48	7	1
β-strand	54-58	5	1
α-helix	62-71	10
β-strand	77-79	3	1
α-helix	81-90	10

Chain X: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	142-153	12

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MEF2D protein	A, B	protein	95	Homo sapiens	Q05BX2 (AlphaFold model)
DNA MADS box	K	DNA	14	Homo sapiens
DNA MADS box	L	DNA	14	Homo sapiens
myocyte enhancer-binding factor 2-interacting transcriptional repressor (MITR or HDAC9) L151V…	X	protein	19	Homo sapiens	Q9UKV0 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>8Q9N_1 MEF2D protein (chains A, B)
MGRKKIQIQRITDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNHSNKLFQYAST
DMDKVLLKYTEYNEPHESRTNADIIETLRKKGFNG

Sequence of entity 2 (K), FASTA

>8Q9N_2 DNA MADS box (chains K)
AACTATTTATAAGA

Sequence of entity 3 (L), FASTA

>8Q9N_3 DNA MADS box (chains L)
TCTTATAAATAGTT

Sequence of entity 4 (X), FASTA

>8Q9N_4 myocyte enhancer-binding factor 2-interacting transcriptional repressor (MITR or HDAC9) L151V mutant peptide: GLU-VAL-LYS-GLN-LYS-LEU-GLN-GLU-PHE-VAL-LEU-SER-LYS (chains X)
XWGSGEVKQKLQEFVLSKS

Primary citation

Folding of Class IIa HDAC Derived Peptides into alpha-helices Upon Binding to Myocyte Enhancer Factor-2 in Complex with DNA. Chinellato, M., Perin, S., Carli, A. et al. J Mol Biol (2024) 436:168541-168541. DOI 10.1016/j.jmb.2024.168541 · PubMed

Other PDB entries of the same protein (UniProt Q05BX2 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8Q9Q 2.11 Å, Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and HDAC7…
8Q9P 2.2 Å, Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and HDAC5…
8Q9R 2.25 Å, Crystal structure of MADS-box/MEF2D N-terminal domain bound to dsDNA and HDAC9…
8PDE 2.4 Å, Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and HDAC4…

Browse structure collections

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