3V4Y

Crystal Structure of the first Nuclear PP1 holoenzyme

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000164	cellular_component	protein phosphatase type 1 complex
A	0000781	cellular_component	chromosome, telomeric region
A	0001111	biological_process	RNA polymerase II promoter clearance
A	0004721	molecular_function	phosphoprotein phosphatase activity
A	0004722	molecular_function	protein serine/threonine phosphatase activity
A	0005506	molecular_function	iron ion binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005730	cellular_component	nucleolus
A	0005737	cellular_component	cytoplasm
A	0005783	cellular_component	endoplasmic reticulum
A	0005829	cellular_component	cytosol
A	0005912	cellular_component	adherens junction
A	0005977	biological_process	glycogen metabolic process
A	0005979	biological_process	regulation of glycogen biosynthetic process
A	0005981	biological_process	regulation of glycogen catabolic process
A	0006470	biological_process	protein dephosphorylation
A	0008157	molecular_function	protein phosphatase 1 binding
A	0010288	biological_process	response to lead ion
A	0016787	molecular_function	hydrolase activity
A	0016791	molecular_function	phosphatase activity
A	0032922	biological_process	circadian regulation of gene expression
A	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
A	0034244	biological_process	negative regulation of transcription elongation by RNA polymerase II
A	0042587	cellular_component	glycogen granule
A	0042752	biological_process	regulation of circadian rhythm
A	0043021	molecular_function	ribonucleoprotein complex binding
A	0043025	cellular_component	neuronal cell body
A	0043153	biological_process	entrainment of circadian clock by photoperiod
A	0043197	cellular_component	dendritic spine
A	0043204	cellular_component	perikaryon
A	0043247	biological_process	telomere maintenance in response to DNA damage
A	0043558	biological_process	regulation of translational initiation in response to stress
A	0044877	molecular_function	protein-containing complex binding
A	0045725	biological_process	positive regulation of glycogen biosynthetic process
A	0046579	biological_process	positive regulation of Ras protein signal transduction
A	0046872	molecular_function	metal ion binding
A	0046914	molecular_function	transition metal ion binding
A	0050821	biological_process	protein stabilization
A	0051301	biological_process	cell division
A	0060828	biological_process	regulation of canonical Wnt signaling pathway
A	0070062	cellular_component	extracellular exosome
A	0072357	cellular_component	PTW/PP1 phosphatase complex
A	0098609	biological_process	cell-cell adhesion
A	0098641	molecular_function	cadherin binding involved in cell-cell adhesion
A	0098793	cellular_component	presynapse
A	0098794	cellular_component	postsynapse
A	0098978	cellular_component	glutamatergic synapse
A	0180007	molecular_function	RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity
A	2000806	biological_process	positive regulation of termination of RNA polymerase II transcription, poly(A)-coupled
C	0000164	cellular_component	protein phosphatase type 1 complex
C	0000781	cellular_component	chromosome, telomeric region
C	0001111	biological_process	RNA polymerase II promoter clearance
C	0004721	molecular_function	phosphoprotein phosphatase activity
C	0004722	molecular_function	protein serine/threonine phosphatase activity
C	0005506	molecular_function	iron ion binding
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005730	cellular_component	nucleolus
C	0005737	cellular_component	cytoplasm
C	0005783	cellular_component	endoplasmic reticulum
C	0005829	cellular_component	cytosol
C	0005912	cellular_component	adherens junction
C	0005977	biological_process	glycogen metabolic process
C	0005979	biological_process	regulation of glycogen biosynthetic process
C	0005981	biological_process	regulation of glycogen catabolic process
C	0006470	biological_process	protein dephosphorylation
C	0008157	molecular_function	protein phosphatase 1 binding
C	0010288	biological_process	response to lead ion
C	0016787	molecular_function	hydrolase activity
C	0016791	molecular_function	phosphatase activity
C	0032922	biological_process	circadian regulation of gene expression
C	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
C	0034244	biological_process	negative regulation of transcription elongation by RNA polymerase II
C	0042587	cellular_component	glycogen granule
C	0042752	biological_process	regulation of circadian rhythm
C	0043021	molecular_function	ribonucleoprotein complex binding
C	0043025	cellular_component	neuronal cell body
C	0043153	biological_process	entrainment of circadian clock by photoperiod
C	0043197	cellular_component	dendritic spine
C	0043204	cellular_component	perikaryon
C	0043247	biological_process	telomere maintenance in response to DNA damage
C	0043558	biological_process	regulation of translational initiation in response to stress
C	0044877	molecular_function	protein-containing complex binding
C	0045725	biological_process	positive regulation of glycogen biosynthetic process
C	0046579	biological_process	positive regulation of Ras protein signal transduction
C	0046872	molecular_function	metal ion binding
C	0046914	molecular_function	transition metal ion binding
C	0050821	biological_process	protein stabilization
C	0051301	biological_process	cell division
C	0060828	biological_process	regulation of canonical Wnt signaling pathway
C	0070062	cellular_component	extracellular exosome
C	0072357	cellular_component	PTW/PP1 phosphatase complex
C	0098609	biological_process	cell-cell adhesion
C	0098641	molecular_function	cadherin binding involved in cell-cell adhesion
C	0098793	cellular_component	presynapse
C	0098794	cellular_component	postsynapse
C	0098978	cellular_component	glutamatergic synapse
C	0180007	molecular_function	RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity
C	2000806	biological_process	positive regulation of termination of RNA polymerase II transcription, poly(A)-coupled
E	0000164	cellular_component	protein phosphatase type 1 complex
E	0000781	cellular_component	chromosome, telomeric region
E	0001111	biological_process	RNA polymerase II promoter clearance
E	0004721	molecular_function	phosphoprotein phosphatase activity
E	0004722	molecular_function	protein serine/threonine phosphatase activity
E	0005506	molecular_function	iron ion binding
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005730	cellular_component	nucleolus
E	0005737	cellular_component	cytoplasm
E	0005783	cellular_component	endoplasmic reticulum
E	0005829	cellular_component	cytosol
E	0005912	cellular_component	adherens junction
E	0005977	biological_process	glycogen metabolic process
E	0005979	biological_process	regulation of glycogen biosynthetic process
E	0005981	biological_process	regulation of glycogen catabolic process
E	0006470	biological_process	protein dephosphorylation
E	0008157	molecular_function	protein phosphatase 1 binding
E	0010288	biological_process	response to lead ion
E	0016787	molecular_function	hydrolase activity
E	0016791	molecular_function	phosphatase activity
E	0032922	biological_process	circadian regulation of gene expression
E	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
E	0034244	biological_process	negative regulation of transcription elongation by RNA polymerase II
E	0042587	cellular_component	glycogen granule
E	0042752	biological_process	regulation of circadian rhythm
E	0043021	molecular_function	ribonucleoprotein complex binding
E	0043025	cellular_component	neuronal cell body
E	0043153	biological_process	entrainment of circadian clock by photoperiod
E	0043197	cellular_component	dendritic spine
E	0043204	cellular_component	perikaryon
E	0043247	biological_process	telomere maintenance in response to DNA damage
E	0043558	biological_process	regulation of translational initiation in response to stress
E	0044877	molecular_function	protein-containing complex binding
E	0045725	biological_process	positive regulation of glycogen biosynthetic process
E	0046579	biological_process	positive regulation of Ras protein signal transduction
E	0046872	molecular_function	metal ion binding
E	0046914	molecular_function	transition metal ion binding
E	0050821	biological_process	protein stabilization
E	0051301	biological_process	cell division
E	0060828	biological_process	regulation of canonical Wnt signaling pathway
E	0070062	cellular_component	extracellular exosome
E	0072357	cellular_component	PTW/PP1 phosphatase complex
E	0098609	biological_process	cell-cell adhesion
E	0098641	molecular_function	cadherin binding involved in cell-cell adhesion
E	0098793	cellular_component	presynapse
E	0098794	cellular_component	postsynapse
E	0098978	cellular_component	glutamatergic synapse
E	0180007	molecular_function	RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity
E	2000806	biological_process	positive regulation of termination of RNA polymerase II transcription, poly(A)-coupled
G	0000164	cellular_component	protein phosphatase type 1 complex
G	0000781	cellular_component	chromosome, telomeric region
G	0001111	biological_process	RNA polymerase II promoter clearance
G	0004721	molecular_function	phosphoprotein phosphatase activity
G	0004722	molecular_function	protein serine/threonine phosphatase activity
G	0005506	molecular_function	iron ion binding
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005730	cellular_component	nucleolus
G	0005737	cellular_component	cytoplasm
G	0005783	cellular_component	endoplasmic reticulum
G	0005829	cellular_component	cytosol
G	0005912	cellular_component	adherens junction
G	0005977	biological_process	glycogen metabolic process
G	0005979	biological_process	regulation of glycogen biosynthetic process
G	0005981	biological_process	regulation of glycogen catabolic process
G	0006470	biological_process	protein dephosphorylation
G	0008157	molecular_function	protein phosphatase 1 binding
G	0010288	biological_process	response to lead ion
G	0016787	molecular_function	hydrolase activity
G	0016791	molecular_function	phosphatase activity
G	0032922	biological_process	circadian regulation of gene expression
G	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
G	0034244	biological_process	negative regulation of transcription elongation by RNA polymerase II
G	0042587	cellular_component	glycogen granule
G	0042752	biological_process	regulation of circadian rhythm
G	0043021	molecular_function	ribonucleoprotein complex binding
G	0043025	cellular_component	neuronal cell body
G	0043153	biological_process	entrainment of circadian clock by photoperiod
G	0043197	cellular_component	dendritic spine
G	0043204	cellular_component	perikaryon
G	0043247	biological_process	telomere maintenance in response to DNA damage
G	0043558	biological_process	regulation of translational initiation in response to stress
G	0044877	molecular_function	protein-containing complex binding
G	0045725	biological_process	positive regulation of glycogen biosynthetic process
G	0046579	biological_process	positive regulation of Ras protein signal transduction
G	0046872	molecular_function	metal ion binding
G	0046914	molecular_function	transition metal ion binding
G	0050821	biological_process	protein stabilization
G	0051301	biological_process	cell division
G	0060828	biological_process	regulation of canonical Wnt signaling pathway
G	0070062	cellular_component	extracellular exosome
G	0072357	cellular_component	PTW/PP1 phosphatase complex
G	0098609	biological_process	cell-cell adhesion
G	0098641	molecular_function	cadherin binding involved in cell-cell adhesion
G	0098793	cellular_component	presynapse
G	0098794	cellular_component	postsynapse
G	0098978	cellular_component	glutamatergic synapse
G	0180007	molecular_function	RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity
G	2000806	biological_process	positive regulation of termination of RNA polymerase II transcription, poly(A)-coupled

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN A 401

Chain	Residue
A	ASP92
A	ASN124
A	HIS173
A	HIS248
A	MN402
A	HOH517

---

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN A 402

Chain	Residue
A	MN401
A	HOH517
A	HOH661
A	ASP64
A	HIS66
A	ASP92

---

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL A 403

Chain	Residue
A	GLU56
A	ASN86
A	GLU116
C	HOH545

---

site_id	AC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 404

Chain	Residue
A	PRO50
A	LEU53
A	GLU54
A	GLU116
A	HOH587
A	HOH630

---

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 405

Chain	Residue
A	CYS127
A	SER129
A	VAL195
A	PRO196
A	TRP206
A	HOH544

---

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE 15P A 406

Chain	Residue
A	SER129
A	ARG132
A	ILE133
A	TRP149
C	ASP300

---

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN C 401

Chain	Residue
C	ASP64
C	HIS66
C	ASP92
C	MN402
C	HOH614
C	HOH662

---

site_id	AC8
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN C 402

Chain	Residue
C	ASP92
C	ASN124
C	HIS173
C	HIS248
C	MN401
C	HOH614

---

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL C 403

Chain	Residue
C	PRO50
C	LEU53
C	GLU54
C	GLU116

---

site_id	BC1
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL C 404

Chain	Residue
A	ARG188
B	HIS173
B	ARG176
B	ILE177
B	SER178
B	HOH303
B	HOH316
C	SER129
C	ARG132

---

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL C 405

Chain	Residue
C	ASP208
C	ASN219
C	ASP220
C	GLN249
C	HOH601

---

site_id	BC3
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN E 401

Chain	Residue
E	ASP64
E	HIS66
E	ASP92
E	MN402
E	HOH555
E	HOH604

---

site_id	BC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MN E 402

Chain	Residue
E	ASP92
E	ASN124
E	HIS173
E	HIS248
E	MN401
E	HOH604

---

site_id	BC5
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL E 403

Chain	Residue
E	CYS127
E	SER129
E	VAL195
E	PRO196
E	ASP197
E	TRP206
E	HOH572

---

site_id	BC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL E 404

Chain	Residue
E	LEU55
E	GLU56
E	ASN86
E	GLU116

---

site_id	BC7
Number of Residues	1
Details	BINDING SITE FOR RESIDUE GOL E 405

Chain	Residue
E	GLU54

---

site_id	BC8
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN G 401

Chain	Residue
G	ASP64
G	HIS66
G	ASP92
G	MN402
G	HOH587

---

site_id	BC9
Number of Residues	7
Details	BINDING SITE FOR RESIDUE MN G 402

Chain	Residue
G	ASP92
G	ASN124
G	HIS173
G	HIS248
G	MN401
G	HOH534
G	HOH587

---

site_id	CC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL G 403

Chain	Residue
G	PRO50
G	GLU54
G	GLU116
G	PHE119

---

Functional Information from PROSITE/UniProt

site_id	PS00125
Number of Residues	6
Details	SER_THR_PHOSPHATASE Serine/threonine specific protein phosphatases signature. LRGNHE

Chain	Residue	Details
A	LEU121-GLU126

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Proton donor","evidences":[{"source":"UniProtKB","id":"P36873","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	24
Details	Binding site: {"evidences":[{"source":"PubMed","id":"30100357","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"35830882","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"35831509","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"36175670","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"39446389","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6CZO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TVF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TXH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7UPI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8SW5","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	12
Details	Region: {"description":"Involved in PP-1 binding"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	4
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q28147","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	11
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q28147","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---