PROSITE documentation PDOC52014
SAMD1-like winged helix (WH) domain profile


The SAMD1-like winged helix (WH) domain forms a group of WH domains with shared sequence homology found in the following transcriptional regulators:

  • Animal SAM domain-containing protein 1 (SAMD1) (also named Atherin), an unmethylated CGI-binding protein that cooperates with chromatin regulators to modulate the chromatin landscape and down-regulate its target genes [1].
  • Animal Lysine Acetyltransferase 6A (KAT6A), also named MYST3 and MOZ Monocytic leukemic zinc-finger), a histone acetyltransferase that acetylates lysine residues in histone H3 and histone H4 [1].
  • Animal Lysine Acetyltransferase 6B (KAT6B), also named MYST4 and MORF (Monocytic leukemia zinc finger protein-related factor), a histone acetyltransferase which may be involved in both positive and negative regulation of transcription.
  • Animal zinc finger MYND-type containing 11 (ZMYND11), a transcriptional co- repressor that interacts selectively with histone H3.3.

Within this group, the SAMD1-like WH domains of KAT6A, -B and SAMD1 are similar to each other, while the one of ZMYND11 is more distant. The KAT6A, -B and SAMD1 SAMD1-like WH domain directly recognizes unmethylated CpG-containing DNA via simultaneous interactions with both the major and the minor groove [1,2].

The SAMD1-like WH domain has the fold of a winged helix domain that contains three α helices at the N-terminal half and two β strands at the C-terminal half (see <PDB:6LUI>). Wing-like loops between strands β1 and β2 (W1) and after β2 (W2) are observed. Both the major groove and the minor groove of the CpG-containing DNA are recognized. The C terminal end of the α1 helix inserts into the CpG-containing major groove. The DNA minor groove is contacted either trough the W1 loop (SAMD1) or through the W2 loop (KAT6A) [1,2].

The profile we developed covers the entire SAMD1-like WH domain.

Last update:

January 2023 / First entry.


Technical section

PROSITE method (with tools and information) covered by this documentation:

SAMD1_WH, PS52014; SAMD1-like winged helix (WH) domain profile  (MATRIX)


1AuthorsStielow B. Zhou Y. Cao Y. Simon C. Pogoda H.-M. Jiang J. Ren Y. Phanor S.K. Rohner I. Nist A. Stiewe T. Hammerschmidt M. Shi Y. Bulyk M.L. Wang Z. Liefke R.
TitleThe SAM domain-containing protein 1 (SAMD1) acts as a repressive chromatin regulator at unmethylated CpG islands.
SourceSci. Adv. 7:0-0(2021).
PubMed ID33980486

2AuthorsWeber L.M. Jia Y. Stielow B. Gisselbrecht S.S. Cao Y. Ren Y. Rohner I. King J. Rothman E. Fischer S. Simon C. Forne I. Nist A. Stiewe T. Bulyk M.L. Wang Z. Liefke R.
TitleThe histone acetyltransferase KAT6A is recruited to unmethylated CpG islands via a DNA binding winged helix domain.
SourceNucleic. Acids. Res. 0:0-0(2022).
PubMed ID36537216

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