2CCH

The crystal structure of CDK2 cyclin A in complex with a substrate peptide derived from CDC modified with a gamma-linked ATP analogue

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000082	biological_process	G1/S transition of mitotic cell cycle
A	0000086	biological_process	G2/M transition of mitotic cell cycle
A	0000122	biological_process	negative regulation of transcription by RNA polymerase II
A	0000166	molecular_function	nucleotide binding
A	0000287	molecular_function	magnesium ion binding
A	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
A	0000781	cellular_component	chromosome, telomeric region
A	0000793	cellular_component	condensed chromosome
A	0000805	cellular_component	X chromosome
A	0000806	cellular_component	Y chromosome
A	0001673	cellular_component	male germ cell nucleus
A	0004672	molecular_function	protein kinase activity
A	0004674	molecular_function	protein serine/threonine kinase activity
A	0004693	molecular_function	cyclin-dependent protein serine/threonine kinase activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005635	cellular_component	nuclear envelope
A	0005654	cellular_component	nucleoplasm
A	0005667	cellular_component	transcription regulator complex
A	0005737	cellular_component	cytoplasm
A	0005768	cellular_component	endosome
A	0005813	cellular_component	centrosome
A	0005829	cellular_component	cytosol
A	0005856	cellular_component	cytoskeleton
A	0006260	biological_process	DNA replication
A	0006281	biological_process	DNA repair
A	0006338	biological_process	chromatin remodeling
A	0006351	biological_process	DNA-templated transcription
A	0006468	biological_process	protein phosphorylation
A	0006813	biological_process	potassium ion transport
A	0006974	biological_process	DNA damage response
A	0007049	biological_process	cell cycle
A	0007099	biological_process	centriole replication
A	0007165	biological_process	signal transduction
A	0007265	biological_process	Ras protein signal transduction
A	0007346	biological_process	regulation of mitotic cell cycle
A	0008284	biological_process	positive regulation of cell population proliferation
A	0010033	biological_process	response to organic substance
A	0010389	biological_process	regulation of G2/M transition of mitotic cell cycle
A	0010468	biological_process	regulation of gene expression
A	0015030	cellular_component	Cajal body
A	0016301	molecular_function	kinase activity
A	0016310	biological_process	phosphorylation
A	0016740	molecular_function	transferase activity
A	0018105	biological_process	peptidyl-serine phosphorylation
A	0019904	molecular_function	protein domain specific binding
A	0030332	molecular_function	cyclin binding
A	0031453	biological_process	positive regulation of heterochromatin formation
A	0031571	biological_process	mitotic G1 DNA damage checkpoint signaling
A	0032298	biological_process	positive regulation of DNA-templated DNA replication initiation
A	0035173	molecular_function	histone kinase activity
A	0043687	biological_process	post-translational protein modification
A	0045740	biological_process	positive regulation of DNA replication
A	0045893	biological_process	positive regulation of DNA-templated transcription
A	0046872	molecular_function	metal ion binding
A	0051298	biological_process	centrosome duplication
A	0051301	biological_process	cell division
A	0051321	biological_process	meiotic cell cycle
A	0071732	biological_process	cellular response to nitric oxide
A	0090398	biological_process	cellular senescence
A	0097123	cellular_component	cyclin A1-CDK2 complex
A	0097124	cellular_component	cyclin A2-CDK2 complex
A	0097134	cellular_component	cyclin E1-CDK2 complex
A	0097135	cellular_component	cyclin E2-CDK2 complex
A	0097472	molecular_function	cyclin-dependent protein kinase activity
A	0106310	molecular_function	protein serine kinase activity
A	1905784	biological_process	regulation of anaphase-promoting complex-dependent catabolic process
B	0016538	molecular_function	cyclin-dependent protein serine/threonine kinase regulator activity
B	0044772	biological_process	mitotic cell cycle phase transition
C	0000082	biological_process	G1/S transition of mitotic cell cycle
C	0000086	biological_process	G2/M transition of mitotic cell cycle
C	0000122	biological_process	negative regulation of transcription by RNA polymerase II
C	0000166	molecular_function	nucleotide binding
C	0000287	molecular_function	magnesium ion binding
C	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
C	0000781	cellular_component	chromosome, telomeric region
C	0000793	cellular_component	condensed chromosome
C	0000805	cellular_component	X chromosome
C	0000806	cellular_component	Y chromosome
C	0001673	cellular_component	male germ cell nucleus
C	0004672	molecular_function	protein kinase activity
C	0004674	molecular_function	protein serine/threonine kinase activity
C	0004693	molecular_function	cyclin-dependent protein serine/threonine kinase activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP binding
C	0005634	cellular_component	nucleus
C	0005635	cellular_component	nuclear envelope
C	0005654	cellular_component	nucleoplasm
C	0005667	cellular_component	transcription regulator complex
C	0005737	cellular_component	cytoplasm
C	0005768	cellular_component	endosome
C	0005813	cellular_component	centrosome
C	0005829	cellular_component	cytosol
C	0005856	cellular_component	cytoskeleton
C	0006260	biological_process	DNA replication
C	0006281	biological_process	DNA repair
C	0006338	biological_process	chromatin remodeling
C	0006351	biological_process	DNA-templated transcription
C	0006468	biological_process	protein phosphorylation
C	0006813	biological_process	potassium ion transport
C	0006974	biological_process	DNA damage response
C	0007049	biological_process	cell cycle
C	0007099	biological_process	centriole replication
C	0007165	biological_process	signal transduction
C	0007265	biological_process	Ras protein signal transduction
C	0007346	biological_process	regulation of mitotic cell cycle
C	0008284	biological_process	positive regulation of cell population proliferation
C	0010033	biological_process	response to organic substance
C	0010389	biological_process	regulation of G2/M transition of mitotic cell cycle
C	0010468	biological_process	regulation of gene expression
C	0015030	cellular_component	Cajal body
C	0016301	molecular_function	kinase activity
C	0016310	biological_process	phosphorylation
C	0016740	molecular_function	transferase activity
C	0018105	biological_process	peptidyl-serine phosphorylation
C	0019904	molecular_function	protein domain specific binding
C	0030332	molecular_function	cyclin binding
C	0031453	biological_process	positive regulation of heterochromatin formation
C	0031571	biological_process	mitotic G1 DNA damage checkpoint signaling
C	0032298	biological_process	positive regulation of DNA-templated DNA replication initiation
C	0035173	molecular_function	histone kinase activity
C	0043687	biological_process	post-translational protein modification
C	0045740	biological_process	positive regulation of DNA replication
C	0045893	biological_process	positive regulation of DNA-templated transcription
C	0046872	molecular_function	metal ion binding
C	0051298	biological_process	centrosome duplication
C	0051301	biological_process	cell division
C	0051321	biological_process	meiotic cell cycle
C	0071732	biological_process	cellular response to nitric oxide
C	0090398	biological_process	cellular senescence
C	0097123	cellular_component	cyclin A1-CDK2 complex
C	0097124	cellular_component	cyclin A2-CDK2 complex
C	0097134	cellular_component	cyclin E1-CDK2 complex
C	0097135	cellular_component	cyclin E2-CDK2 complex
C	0097472	molecular_function	cyclin-dependent protein kinase activity
C	0106310	molecular_function	protein serine kinase activity
C	1905784	biological_process	regulation of anaphase-promoting complex-dependent catabolic process
D	0016538	molecular_function	cyclin-dependent protein serine/threonine kinase regulator activity
D	0044772	biological_process	mitotic cell cycle phase transition

Functional Information from PDB Data

site_id	AC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 A1298

Chain	Residue
A	ARG214
A	ARG217
A	LYS278
A	HOH2383
A	HOH2384
A	HOH2385
A	HOH2386
B	HOH2070

---

site_id	AC2
Number of Residues	28
Details	BINDING SITE FOR RESIDUE ATP A1297

Chain	Residue
A	GLY11
A	GLU12
A	TYR15
A	VAL18
A	ALA31
A	LYS33
A	GLU81
A	PHE82
A	LEU83
A	ASP86
A	LYS89
A	LYS129
A	GLN131
A	ASN132
A	LEU134
A	ASP145
A	GLY147
A	LEU148
A	HOH2037
A	HOH2374
A	HOH2375
A	HOH2376
A	HOH2377
A	HOH2378
A	HOH2379
A	HOH2380
A	HOH2381
A	ILE10

---

site_id	AC3
Number of Residues	23
Details	BINDING SITE FOR RESIDUE ATP C1297

Chain	Residue
C	ILE10
C	GLY11
C	GLU12
C	TYR15
C	ALA31
C	LYS33
C	GLU81
C	PHE82
C	LEU83
C	ASP86
C	LYS89
C	LYS129
C	GLN131
C	ASN132
C	LEU134
C	ASP145
C	GLY147
C	LEU148
C	HOH2089
C	HOH2141
C	HOH2142
C	HOH2143
C	HOH2144

---

site_id	AC4
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A1299

Chain	Residue
A	PHE109
A	ILE209
A	PHE213
A	LYS237
A	SER239
A	PHE286
A	GLN287
A	HOH2387
A	HOH2388

---

site_id	AC5
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A1300

Chain	Residue
A	HIS60
A	GLN113
A	ALA116
A	PHE117
A	LYS242
A	TRP243
A	HOH2285
A	HOH2389
A	HOH2390

---

Functional Information from PROSITE/UniProt

site_id	PS00292
Number of Residues	32
Details	CYCLINS Cyclins signature. RaiLvdWLvevgeeykLqnetLhlAVnYIDRF

Chain	Residue	Details
B	ARG211-PHE242

---

site_id	PS00107
Number of Residues	24
Details	PROTEIN_KINASE_ATP Protein kinases ATP-binding region signature. IGEGTYGVVYkArnkltgev..........VALK

Chain	Residue	Details
A	ILE10-LYS33

---

site_id	PS00108
Number of Residues	13
Details	PROTEIN_KINASE_ST Serine/Threonine protein kinases active-site signature. VlHrDLKpqNLLI

Chain	Residue	Details
A	VAL123-ILE135

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	ACT_SITE: Proton acceptor

Chain	Residue	Details
A	ASP127
C	ASP127

---

site_id	SWS_FT_FI2
Number of Residues	10
Details	BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00159, ECO:0000269|PubMed:17095507, ECO:0000269|PubMed:21565702

Chain	Residue	Details
A	GLU81
A	ASP86
A	LYS129
C	ILE10
C	LYS33
C	GLU81
C	ASP86
C	LYS129
A	ILE10
A	LYS33

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: BINDING => ECO:0000269|PubMed:21565702

Chain	Residue	Details
A	ASN132
A	ASP145
C	ASN132
C	ASP145

---

site_id	SWS_FT_FI4
Number of Residues	6
Details	SITE: CDK7 binding

Chain	Residue	Details
A	LYS9
A	LYS88
A	LEU166
C	LYS9
C	LYS88
C	LEU166

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	MOD_RES: N-acetylmethionine => ECO:0007744|PubMed:22814378

Chain	Residue	Details
A	MET1
C	MET1

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861

Chain	Residue	Details
A	LYS6
C	LYS6

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:17095507

Chain	Residue	Details
A	THR14
C	THR14

---

site_id	SWS_FT_FI8
Number of Residues	2
Details	MOD_RES: Phosphotyrosine; by WEE1 => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:17095507, ECO:0007744|PubMed:19690332

Chain	Residue	Details
A	TYR15
C	TYR15

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	MOD_RES: Phosphotyrosine => ECO:0007744|PubMed:19369195

Chain	Residue	Details
A	TYR19
C	TYR19

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	MOD_RES: Phosphothreonine; by CAK and CCRK => ECO:0000269|PubMed:1396589, ECO:0000269|PubMed:14597612, ECO:0000269|PubMed:16325401, ECO:0000269|PubMed:17095507, ECO:0000269|PubMed:17570665, ECO:0000269|PubMed:20147522, ECO:0000269|PubMed:20360007, ECO:0000269|PubMed:21565702, ECO:0000305|PubMed:28666995

Chain	Residue	Details
A	TPO160
C	TPO160

---