6O1D

Cryo-EM structure of the centromeric nucleosome with native alpha satellite DNA

GO（遺伝子オントロジー）由来の情報

鎖名	GO（遺伝子オントロジー）id	名前空間	内容
A	0000132	biological_process	establishment of mitotic spindle orientation
A	0000281	biological_process	mitotic cytokinesis
A	0000775	cellular_component	chromosome, centromeric region
A	0000779	cellular_component	condensed chromosome, centromeric region
A	0000786	cellular_component	nucleosome
A	0003677	molecular_function	DNA binding
A	0003682	molecular_function	chromatin binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005694	cellular_component	chromosome
A	0005721	cellular_component	pericentric heterochromatin
A	0005829	cellular_component	cytosol
A	0007049	biological_process	cell cycle
A	0030527	molecular_function	structural constituent of chromatin
A	0034080	biological_process	CENP-A containing chromatin assembly
A	0043229	cellular_component	intracellular organelle
A	0043505	cellular_component	CENP-A containing nucleosome
A	0046982	molecular_function	protein heterodimerization activity
A	0051301	biological_process	cell division
A	0051382	biological_process	kinetochore assembly
A	0061638	cellular_component	CENP-A containing chromatin
A	0061644	biological_process	protein localization to CENP-A containing chromatin
A	0071459	biological_process	protein localization to chromosome, centromeric region
B	0000781	cellular_component	chromosome, telomeric region
B	0000786	cellular_component	nucleosome
B	0003677	molecular_function	DNA binding
B	0003723	molecular_function	RNA binding
B	0005515	molecular_function	protein binding
B	0005576	cellular_component	extracellular region
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005694	cellular_component	chromosome
B	0006325	biological_process	chromatin organization
B	0006334	biological_process	nucleosome assembly
B	0016020	cellular_component	membrane
B	0030527	molecular_function	structural constituent of chromatin
B	0032200	biological_process	telomere organization
B	0032991	cellular_component	protein-containing complex
B	0043505	cellular_component	CENP-A containing nucleosome
B	0045653	biological_process	negative regulation of megakaryocyte differentiation
B	0046982	molecular_function	protein heterodimerization activity
B	0061644	biological_process	protein localization to CENP-A containing chromatin
B	0070062	cellular_component	extracellular exosome
C	0000786	cellular_component	nucleosome
C	0003677	molecular_function	DNA binding
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005694	cellular_component	chromosome
C	0006325	biological_process	chromatin organization
C	0008285	biological_process	negative regulation of cell population proliferation
C	0030527	molecular_function	structural constituent of chromatin
C	0031492	molecular_function	nucleosomal DNA binding
C	0043229	cellular_component	intracellular organelle
C	0043505	cellular_component	CENP-A containing nucleosome
C	0046982	molecular_function	protein heterodimerization activity
C	0061644	biological_process	protein localization to CENP-A containing chromatin
C	0070062	cellular_component	extracellular exosome
C	0070828	biological_process	heterochromatin organization
D	0000786	cellular_component	nucleosome
D	0001530	molecular_function	lipopolysaccharide binding
D	0002227	biological_process	innate immune response in mucosa
D	0003677	molecular_function	DNA binding
D	0005515	molecular_function	protein binding
D	0005615	cellular_component	extracellular space
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005694	cellular_component	chromosome
D	0005829	cellular_component	cytosol
D	0005886	cellular_component	plasma membrane
D	0006325	biological_process	chromatin organization
D	0006334	biological_process	nucleosome assembly
D	0010804	biological_process	negative regulation of tumor necrosis factor-mediated signaling pathway
D	0019731	biological_process	antibacterial humoral response
D	0030527	molecular_function	structural constituent of chromatin
D	0031640	biological_process	killing of cells of another organism
D	0042742	biological_process	defense response to bacterium
D	0043229	cellular_component	intracellular organelle
D	0043505	cellular_component	CENP-A containing nucleosome
D	0046982	molecular_function	protein heterodimerization activity
D	0050829	biological_process	defense response to Gram-negative bacterium
D	0050830	biological_process	defense response to Gram-positive bacterium
D	0061644	biological_process	protein localization to CENP-A containing chromatin
D	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
E	0000132	biological_process	establishment of mitotic spindle orientation
E	0000281	biological_process	mitotic cytokinesis
E	0000775	cellular_component	chromosome, centromeric region
E	0000779	cellular_component	condensed chromosome, centromeric region
E	0000786	cellular_component	nucleosome
E	0003677	molecular_function	DNA binding
E	0003682	molecular_function	chromatin binding
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005694	cellular_component	chromosome
E	0005721	cellular_component	pericentric heterochromatin
E	0005829	cellular_component	cytosol
E	0007049	biological_process	cell cycle
E	0030527	molecular_function	structural constituent of chromatin
E	0034080	biological_process	CENP-A containing chromatin assembly
E	0043229	cellular_component	intracellular organelle
E	0043505	cellular_component	CENP-A containing nucleosome
E	0046982	molecular_function	protein heterodimerization activity
E	0051301	biological_process	cell division
E	0051382	biological_process	kinetochore assembly
E	0061638	cellular_component	CENP-A containing chromatin
E	0061644	biological_process	protein localization to CENP-A containing chromatin
E	0071459	biological_process	protein localization to chromosome, centromeric region
F	0000781	cellular_component	chromosome, telomeric region
F	0000786	cellular_component	nucleosome
F	0003677	molecular_function	DNA binding
F	0003723	molecular_function	RNA binding
F	0005515	molecular_function	protein binding
F	0005576	cellular_component	extracellular region
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005694	cellular_component	chromosome
F	0006325	biological_process	chromatin organization
F	0006334	biological_process	nucleosome assembly
F	0016020	cellular_component	membrane
F	0030527	molecular_function	structural constituent of chromatin
F	0032200	biological_process	telomere organization
F	0032991	cellular_component	protein-containing complex
F	0043505	cellular_component	CENP-A containing nucleosome
F	0045653	biological_process	negative regulation of megakaryocyte differentiation
F	0046982	molecular_function	protein heterodimerization activity
F	0061644	biological_process	protein localization to CENP-A containing chromatin
F	0070062	cellular_component	extracellular exosome
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	0006325	biological_process	chromatin organization
G	0008285	biological_process	negative regulation of cell population proliferation
G	0030527	molecular_function	structural constituent of chromatin
G	0031492	molecular_function	nucleosomal DNA binding
G	0043229	cellular_component	intracellular organelle
G	0043505	cellular_component	CENP-A containing nucleosome
G	0046982	molecular_function	protein heterodimerization activity
G	0061644	biological_process	protein localization to CENP-A containing chromatin
G	0070062	cellular_component	extracellular exosome
G	0070828	biological_process	heterochromatin organization
H	0000786	cellular_component	nucleosome
H	0001530	molecular_function	lipopolysaccharide binding
H	0002227	biological_process	innate immune response in mucosa
H	0003677	molecular_function	DNA binding
H	0005515	molecular_function	protein binding
H	0005615	cellular_component	extracellular space
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005694	cellular_component	chromosome
H	0005829	cellular_component	cytosol
H	0005886	cellular_component	plasma membrane
H	0006325	biological_process	chromatin organization
H	0006334	biological_process	nucleosome assembly
H	0010804	biological_process	negative regulation of tumor necrosis factor-mediated signaling pathway
H	0019731	biological_process	antibacterial humoral response
H	0030527	molecular_function	structural constituent of chromatin
H	0031640	biological_process	killing of cells of another organism
H	0042742	biological_process	defense response to bacterium
H	0043229	cellular_component	intracellular organelle
H	0043505	cellular_component	CENP-A containing nucleosome
H	0046982	molecular_function	protein heterodimerization activity
H	0050829	biological_process	defense response to Gram-negative bacterium
H	0050830	biological_process	defense response to Gram-positive bacterium
H	0061644	biological_process	protein localization to CENP-A containing chromatin
H	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide

UniProtにおけるモチーフ・データベースPROSITEからの機能情報

site_id	PS00047
残基数	5
詳細	HISTONE_H4 Histone H4 signature. GAKRH

鎖名	残基	詳細
B	GLY14-HIS18

---

site_id	PS00046
残基数	7
詳細	HISTONE_H2A Histone H2A signature. AGLqFPV

鎖名	残基	詳細
C	ALA21-VAL27

---

site_id	PS00959
残基数	9
詳細	HISTONE_H3_2 Histone H3 signature 2. PFsRLAREI

鎖名	残基	詳細
A	PRO66-ILE74

---

site_id	PS00357
残基数	23
詳細	HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG

鎖名	残基	詳細
D	ARG92-GLY114

---

SwissProt/UniProtに記載されている蛋白質分子機能情報

site_id	SWS_FT_FI1
残基数	2
詳細	MOD_RES: N-acetylproline => ECO:0000250|UniProtKB:P23527

鎖名	残基	詳細
D	PRO1
H	PRO1

---

site_id	SWS_FT_FI2
残基数	2
詳細	MOD_RES: ADP-ribosyl glutamic acid => ECO:0000269|PubMed:27530147

鎖名	残基	詳細
D	GLU2
H	GLU2

---

site_id	SWS_FT_FI3
残基数	16
詳細	MOD_RES: N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732

鎖名	残基	詳細
D	LYS20
D	LYS23
D	LYS43
D	LYS85
H	LYS5
H	LYS11
H	LYS15
H	LYS16
H	LYS20
H	LYS23
H	LYS43
H	LYS85
D	LYS5
D	LYS11
D	LYS15
D	LYS16

---

site_id	SWS_FT_FI4
残基数	2
詳細	MOD_RES: ADP-ribosylserine => ECO:0000269|PubMed:34874266

鎖名	残基	詳細
D	SER6
H	SER6
G	LYS9
G	LYS95

---

site_id	SWS_FT_FI5
残基数	2
詳細	MOD_RES: N6-crotonyllysine; alternate => ECO:0000269|PubMed:21925322

鎖名	残基	詳細
D	LYS12
H	LYS12
B	LYS44
F	LYS8
F	LYS16
F	LYS44

---

site_id	SWS_FT_FI6
残基数	2
詳細	MOD_RES: Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711

鎖名	残基	詳細
F	LYS77
F	LYS91
D	SER14
H	SER14
B	LYS77
B	LYS91
F	LYS12
F	LYS31

---

site_id	SWS_FT_FI7
残基数	2
詳細	MOD_RES: N6-(2-hydroxyisobutyryl)lysine => ECO:0000269|PubMed:24681537

鎖名	残基	詳細
D	LYS24
H	LYS24
G	LYS74
G	LYS75

---

site_id	SWS_FT_FI8
残基数	6
詳細	MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435

鎖名	残基	詳細
H	LYS116
H	LYS120
D	LYS34
D	LYS116
D	LYS120
H	LYS34

---

site_id	SWS_FT_FI9
残基数	2
詳細	MOD_RES: PolyADP-ribosyl glutamic acid => ECO:0000250|UniProtKB:Q64475

鎖名	残基	詳細
D	GLU35
H	GLU35
C	LYS125
G	LYS118
G	LYS119
G	LYS125

---

site_id	SWS_FT_FI10
残基数	2
詳細	MOD_RES: Phosphoserine; by AMPK => ECO:0000250|UniProtKB:Q64475

鎖名	残基	詳細
D	SER36
H	SER36

---

site_id	SWS_FT_FI11
残基数	4
詳細	MOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:16627869

鎖名	残基	詳細
D	LYS46
D	LYS108
H	LYS46
H	LYS108

---

site_id	SWS_FT_FI12
残基数	2
詳細	MOD_RES: N6-(2-hydroxyisobutyryl)lysine; alternate => ECO:0000269|PubMed:24681537

鎖名	残基	詳細
G	LYS119
D	LYS57
H	LYS57

---

site_id	SWS_FT_FI13
残基数	2
詳細	MOD_RES: Dimethylated arginine => ECO:0000250|UniProtKB:Q96A08

鎖名	残基	詳細
D	ARG79
H	ARG79

---

site_id	SWS_FT_FI14
残基数	4
詳細	MOD_RES: Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08

鎖名	残基	詳細
H	ARG86
H	ARG92
D	ARG92
D	ARG86

---

site_id	SWS_FT_FI15
残基数	2
詳細	MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q00729

鎖名	残基	詳細
D	THR115
F	LYS91
H	THR115

---

site_id	SWS_FT_FI16
残基数	2
詳細	CARBOHYD: O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807

鎖名	残基	詳細
D	SER112
H	SER112
B	LYS79
F	LYS20
F	LYS59
F	LYS79

---

site_id	SWS_FT_FI17
残基数	2
詳細	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0000250|UniProtKB:P58876

鎖名	残基	詳細
D	LYS5
H	LYS5

---

site_id	SWS_FT_FI18
残基数	4
詳細	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:16307923, ECO:0000269|PubMed:16627869, ECO:0000269|PubMed:16713563

鎖名	残基	詳細
D	LYS120
H	LYS120

---

site_id	SWS_FT_FI19
残基数	2
詳細	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0000250|UniProtKB:Q5QNW6

鎖名	残基	詳細
D	LYS20
H	LYS20

---

site_id	SWS_FT_FI20
残基数	2
詳細	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:21726816

鎖名	残基	詳細
D	LYS34
H	LYS34

---