4RT4: Dpy30

Crystal structure of Dpy30 complexed with Bre2. Determined by X-ray diffraction at 2.0 Å resolution. Released 7 Oct 2015.

Method: X-ray diffraction
Resolution: 2.0 Å
Organisms: Homo sapiens, Saccharomyces cerevisiae S288c
Chains: 5
Atoms: 2,097
Mol. weight: 33.89 kDa
Released: 7 Oct 2015

Explore 4RT4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4RT4 contains 19 α-helices and 0 β-strands across 5 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.

Chains A and B: 5 helices, 0 β-strands

Element	Residues	Length
α-helix	48-50	3
α-helix	53-58	6
α-helix	62-75	14
α-helix	80-91	12
α-helix	92-94	3

Chains C and D: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	48-50	3
α-helix	53-60	8
α-helix	62-75	14
α-helix	80-95	16

Chain E: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	482-499	18

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Protein dpy-30 homolog	A, B, C, D	protein	66	Homo sapiens	Q9C005 (AlphaFold model)
Peptide from COMPASS component BRE2	E	protein	30	Saccharomyces cerevisiae S288c	P43132 (AlphaFold model)

Sequence of entity 1 (A, B, C, D), FASTA

>4RT4_1 Protein dpy-30 homolog (chains A, B, C, D)
SSKQKVDLQSLPTRAYLDQTVVPILLQGLAVLAKERPPNPIEFLASYLLKNKAQFEDRNL
ERPHRD

Sequence of entity 2 (E), FASTA

>4RT4_2 Peptide from COMPASS component BRE2 (chains E)
NTLDTLYKEQIAEDIVWDIIDELEQIALQQ

Primary citation

Structural implications of Dpy30 oligomerization for MLL/SET1 COMPASS H3K4 trimethylation. Zhang, H., Li, M., Gao, Y. et al. Protein Cell (2015) 6:147-151. DOI 10.1007/s13238-014-0127-z · PubMed

Other PDB entries of the same protein (UniProt Q9C005 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3G36 1.2 Å, Crystal structure of the human DPY-30-like C-terminal domain
4RTA 2.12 Å, Cystal structure of the Dpy30 for MLL/SET1 COMPASS H3K4 trimethylation
4RIQ 2.23 Å, Crystal structure of DPY-30 dimerization/docking domain in complex with Ash2L…
6E2H 2.24 Å, Crystal structure of human Ash2L (SPRY domain and SDI motif) in complex with full length…
9YM8 3.43 Å, State 2 focused on PHD FYR of MLL4FC bound to a nucleosome premodified with H2BK120ub…
9YMF 3.45 Å, State 2 focused on H3 N terminal tail of MLL4FC bound to a nucleosome premodified with…
9YL3 3.5 Å, State 1 MLL4FC bound to a nucleosome premodified with H2BK120ub and H4K16ac
9YLE 3.63 Å, State 3 MLL4FC bound to a nucleosome premodified with H2BK120ub and H4K16ac
9YLY 3.77 Å, MLL4FC bound to a nucleosome with p53 RE
7UD5 4.25 Å, Complex between MLL1-WRAD and an H2B-ubiquitinated nucleosome
6PWV 6.2 Å, Cryo-EM structure of MLL1 core complex bound to the nucleosome

Browse structure collections

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