NDB ID: 5CPK PDB ID: 5CPK 
Title:
NUCLEOSOME CONTAINING METHYLATED SAT2L DNA
Molecular Description:
Histone H3.1
Histone H4
Histone H2A type 1-B/E
Histone H2B type 1-J/DNA Complex
Deposited:
2015-07-21
Released:
2015-10-28
Structural Keywords:
B DOUBLE HELIX
Nucleic Acid Sequence:
Click to show/hide 2 nucleic acid sequences
Chain I
(DA)(DT)(DC)(DA)(DT)(DG)(DG)(DA)(DA)(DT)(DC)(DA)(DT)(DT)(DG)(DA)(DA)(DT)(DG)(DG) (DA)(DA)(
DA)(DT)(DG)(DA)(DA)(DT)(DG)(DG)(DA)(DA)(DT)(DC)(DA)(DT)(DT)(DG)(DG)(DT) (DT)(DG)(DG)(DA)(D
C)(DT)(DC)(DA)(DA)(DA)(DT)(DG)(DG)(DA)(DA)(DT)(DT)(DT)(DT) (5CM)(DG)(DA)(DA)(DC)(DA)(DG)(D
G)(DC)(DT)(DC)(DA)(DA)(DA)(DT)(DG)(DG)(DA)(DA) (DT)(DC)(DT)(DT)(5CM)(DG)(DA)(DA)(DT)(DG)(D
G)(DA)(DT)(DT)(5CM)(DG)(DA)(DA)(DT) (DG)(DT)(DA)(DA)(DT)(DC)(DA)(DT)(DT)(DT)(DT)(5CM)(DG)(
DA)(DA)(DT)(DG)(DG)(DA) (DT)(DT)(5CM)(DG)(DA)(DA)(DT)(DG)(DG)(DA)(DA)(DT)(DC)(DT)(DT)(5CM)
(DG)(DA)(DA) (DT)(DG)(DG)(DA)(DA)(DA)(DT)(DG)(DA)(DT)
Chain J
(DA)(DT)(DC)(DA)(DT)(DT)(DT)(DC)(DC)(DA)(DT)(DT)(5CM)(DG)(DA)(DA)(DG)(DA)(DT) (DT)(DC)(DC)
(DA)(DT)(DT)(5CM)(DG)(DA)(DA)(DT)(DC)(DC)(DA)(DT)(DT)(5CM)(DG)(DA) (DA)(DA)(DA)(DT)(DG)(DA
)(DT)(DT)(DA)(DC)(DA)(DT)(DT)(5CM)(DG)(DA)(DA)(DT)(DC) (DC)(DA)(DT)(DT)(5CM)(DG)(DA)(DA)(D
G)(DA)(DT)(DT)(DC)(DC)(DA)(DT)(DT)(DT)(DG) (DA)(DG)(DC)(DC)(DT)(DG)(DT)(DT)(5CM)(DG)(DA)(D
A)(DA)(DA)(DT)(DT)(DC)(DC)(DA) (DT)(DT)(DT)(DG)(DA)(DG)(DT)(DC)(DC)(DA)(DA)(DC)(DC)(DA)(DA
)(DT)(DG)(DA)(DT)(DT) (DC)(DC)(DT)(DC)(DT)(DC)(DA)(DT)(DT)(DT)(DC)(DC)(DA)(DT)(DT)(DC)(DA)
(DA)(DT)(DG) (DA)(DT)(DT)(DC)(DC)(DA)(DT)(DG)(DA)(DT)
Protein Sequence:
Click to show/hide 4 protein sequences
Chain A,E
GSHMARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQ DFKTDLRFQ
SSAVMALQEACEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Chain C,G
GSHMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKT RIIPRHLQL
AIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGK
Chain B,F
GSHMSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA KRKTVTAMD
VVYALKRQGRTLYGFGG
Chain D,H
GSHMPEPAKSAPAPKKGSKKAVTKAQKKDGKKRKRSRKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGE ASRLAHYNK
RSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK
Primary Citation:
Osakabe, A., Adachi, F., Arimura, Y., Maehara, K., Ohkawa, Y., Kurumizaka, H.
Influence of DNA methylation on positioning and DNA flexibility of nucleosomes with pericentric satellite DNA. 
Open Biology, 5, pp. - , 2015.
Experimental Information:
X-RAY DIFFRACTION
Space Group:
P 21 21 21
Cell Constants:
a = 105.197 b = 109.297 c = 173.686 (Ångstroms)
α = 90.0 β = 90.0 γ = 90.0 (degrees)
Refinement:
The structure was refined using the PHENIX program.
The R value is 0.2258 for 59089 reflections in
the resolution range 19.915 to 2.632 Ångstroms
with Fobs > 1.41 sigma(Fobs) and with I > 0.0 sigma(I)