Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

7UX9

Arabidopsis DDM1 bound to nucleosome (H2A.W, H2B, H3.3, H4, with 147 bp DNA)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000786	cellular_component	nucleosome
A	0000792	cellular_component	heterochromatin
A	0003677	molecular_function	DNA binding
A	0003682	molecular_function	chromatin binding
A	0005634	cellular_component	nucleus
A	0005694	cellular_component	chromosome
A	0005721	cellular_component	pericentric heterochromatin
A	0005730	cellular_component	nucleolus
A	0009506	cellular_component	plasmodesma
A	0009536	cellular_component	plastid
A	0030527	molecular_function	structural constituent of chromatin
A	0046982	molecular_function	protein heterodimerization activity
A	0070828	biological_process	heterochromatin organization
B	0000786	cellular_component	nucleosome
B	0000792	cellular_component	heterochromatin
B	0003677	molecular_function	DNA binding
B	0003682	molecular_function	chromatin binding
B	0005634	cellular_component	nucleus
B	0005694	cellular_component	chromosome
B	0005721	cellular_component	pericentric heterochromatin
B	0005730	cellular_component	nucleolus
B	0009506	cellular_component	plasmodesma
B	0009536	cellular_component	plastid
B	0030527	molecular_function	structural constituent of chromatin
B	0046982	molecular_function	protein heterodimerization activity
B	0070828	biological_process	heterochromatin organization
C	0000786	cellular_component	nucleosome
C	0003677	molecular_function	DNA binding
C	0005634	cellular_component	nucleus
C	0005694	cellular_component	chromosome
C	0005730	cellular_component	nucleolus
C	0005829	cellular_component	cytosol
C	0009534	cellular_component	chloroplast thylakoid
C	0009570	cellular_component	chloroplast stroma
C	0030527	molecular_function	structural constituent of chromatin
C	0046982	molecular_function	protein heterodimerization activity
D	0000786	cellular_component	nucleosome
D	0003677	molecular_function	DNA binding
D	0005634	cellular_component	nucleus
D	0005694	cellular_component	chromosome
D	0005730	cellular_component	nucleolus
D	0005829	cellular_component	cytosol
D	0009534	cellular_component	chloroplast thylakoid
D	0009570	cellular_component	chloroplast stroma
D	0030527	molecular_function	structural constituent of chromatin
D	0046982	molecular_function	protein heterodimerization activity
E	0000786	cellular_component	nucleosome
E	0003677	molecular_function	DNA binding
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005694	cellular_component	chromosome
E	0005730	cellular_component	nucleolus
E	0005886	cellular_component	plasma membrane
E	0030527	molecular_function	structural constituent of chromatin
E	0030875	cellular_component	rDNA protrusion
E	0046982	molecular_function	protein heterodimerization activity
F	0000786	cellular_component	nucleosome
F	0003677	molecular_function	DNA binding
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005694	cellular_component	chromosome
F	0005730	cellular_component	nucleolus
F	0005886	cellular_component	plasma membrane
F	0030527	molecular_function	structural constituent of chromatin
F	0030875	cellular_component	rDNA protrusion
F	0046982	molecular_function	protein heterodimerization activity
G	0000786	cellular_component	nucleosome
G	0003677	molecular_function	DNA binding
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005694	cellular_component	chromosome
G	0006334	biological_process	nucleosome assembly
G	0030527	molecular_function	structural constituent of chromatin
G	0046982	molecular_function	protein heterodimerization activity
H	0000786	cellular_component	nucleosome
H	0003677	molecular_function	DNA binding
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005694	cellular_component	chromosome
H	0006334	biological_process	nucleosome assembly
H	0030527	molecular_function	structural constituent of chromatin
H	0046982	molecular_function	protein heterodimerization activity
P	0000786	cellular_component	nucleosome
P	0003677	molecular_function	DNA binding
P	0003678	molecular_function	DNA helicase activity
P	0004386	molecular_function	helicase activity
P	0005515	molecular_function	protein binding
P	0005524	molecular_function	ATP binding
P	0005634	cellular_component	nucleus
P	0006338	biological_process	chromatin remodeling
P	0006346	biological_process	DNA methylation-dependent heterochromatin formation
P	0009294	biological_process	DNA-mediated transformation
P	0016787	molecular_function	hydrolase activity
P	0016887	molecular_function	ATP hydrolysis activity
P	0031507	biological_process	heterochromatin formation
P	0032197	biological_process	retrotransposition
P	0032508	biological_process	DNA duplex unwinding
P	0040029	biological_process	epigenetic regulation of gene expression
P	0140658	molecular_function	ATP-dependent chromatin remodeler activity

Functional Information from PROSITE/UniProt

site_id	PS00046
Number of Residues	7
Details	HISTONE_H2A Histone H2A signature. AGLqFPV

Chain	Residue	Details
A	ALA30-VAL36

site_id	PS00047
Number of Residues	5
Details	HISTONE_H4 Histone H4 signature. GAKRH

Chain	Residue	Details
G	GLY14-HIS18

site_id	PS00322
Number of Residues	7
Details	HISTONE_H3_1 Histone H3 signature 1. KAPRKQL

Chain	Residue	Details
E	LYS14-LEU20

site_id	PS00357
Number of Residues	23
Details	HISTONE_H2B Histone H2B signature. REIQTavRlVLpGELaKHAVSEG

Chain	Residue	Details
C	ARG117-GLY139

site_id	PS00959
Number of Residues	9
Details	HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI

Chain	Residue	Details
E	PRO66-ILE74

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	MOD_RES: N-methylalanine; alternate => ECO:0000269\|PubMed:17691833

Chain	Residue	Details
C	ALA1
D	ALA1

site_id	SWS_FT_FI2
Number of Residues	10
Details	MOD_RES: N6-acetyllysine => ECO:0000269\|PubMed:17691833

Chain	Residue	Details
C	LYS6
D	LYS38
C	LYS11
C	LYS27
C	LYS32
C	LYS38
D	LYS6
D	LYS11
D	LYS27
D	LYS32

site_id	SWS_FT_FI3
Number of Residues	2
Details	MOD_RES: N6,N6-dimethyllysine => ECO:0000250\|UniProtKB:Q9FFC0

Chain	Residue	Details
C	LYS12
D	LYS12

site_id	SWS_FT_FI4
Number of Residues	2
Details	MOD_RES: N6-acetyllysine; partial => ECO:0000269\|PubMed:17691833

Chain	Residue	Details
C	LYS39
D	LYS39

site_id	SWS_FT_FI5
Number of Residues	4
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000250\|UniProtKB:Q9LQQ4

Chain	Residue	Details
C	LYS145
G	LYS16
D	LYS145
G	LYS79
H	LYS8
H	LYS16
H	LYS44
H	LYS79

site_id	SWS_FT_FI6
Number of Residues	4
Details	MOD_RES: N6-methyllysine; alternate => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS12
G	LYS20
H	LYS12
H	LYS20

site_id	SWS_FT_FI7
Number of Residues	4
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS31
G	LYS91
H	LYS31
H	LYS91

site_id	SWS_FT_FI8
Number of Residues	2
Details	MOD_RES: Phosphoserine; by PAK2 => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	SER47
H	SER47

site_id	SWS_FT_FI9
Number of Residues	4
Details	MOD_RES: Phosphotyrosine => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	TYR51
G	TYR88
H	TYR51
H	TYR88

site_id	SWS_FT_FI10
Number of Residues	2
Details	MOD_RES: N6-glutaryllysine; alternate => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS59
H	LYS59

site_id	SWS_FT_FI11
Number of Residues	2
Details	MOD_RES: N6-succinyllysine => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS77
H	LYS77

site_id	SWS_FT_FI12
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS31
H	LYS31

site_id	SWS_FT_FI13
Number of Residues	4
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000250\|UniProtKB:P62805

Chain	Residue	Details
G	LYS91
H	LYS91

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)