1UL1

Crystal structure of the human FEN1-PCNA complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000122	biological_process	negative regulation of transcription by RNA polymerase II
A	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
A	0000701	molecular_function	purine-specific mismatch base pair DNA N-glycosylase activity
A	0000781	cellular_component	chromosome, telomeric region
A	0000785	cellular_component	chromatin
A	0001673	cellular_component	male germ cell nucleus
A	0003677	molecular_function	DNA binding
A	0003682	molecular_function	chromatin binding
A	0003684	molecular_function	damaged DNA binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005652	cellular_component	nuclear lamina
A	0005654	cellular_component	nucleoplasm
A	0005657	cellular_component	replication fork
A	0005813	cellular_component	centrosome
A	0006260	biological_process	DNA replication
A	0006272	biological_process	leading strand elongation
A	0006275	biological_process	regulation of DNA replication
A	0006281	biological_process	DNA repair
A	0006287	biological_process	base-excision repair, gap-filling
A	0006298	biological_process	mismatch repair
A	0006979	biological_process	response to oxidative stress
A	0007507	biological_process	heart development
A	0016604	cellular_component	nuclear body
A	0019899	molecular_function	enzyme binding
A	0019985	biological_process	translesion synthesis
A	0030331	molecular_function	nuclear estrogen receptor binding
A	0030337	molecular_function	DNA polymerase processivity factor activity
A	0030855	biological_process	epithelial cell differentiation
A	0030894	cellular_component	replisome
A	0030971	molecular_function	receptor tyrosine kinase binding
A	0031297	biological_process	replication fork processing
A	0032077	biological_process	positive regulation of deoxyribonuclease activity
A	0032139	molecular_function	dinucleotide insertion or deletion binding
A	0032355	biological_process	response to estradiol
A	0032405	molecular_function	MutLalpha complex binding
A	0033993	biological_process	response to lipid
A	0034644	biological_process	cellular response to UV
A	0035035	molecular_function	histone acetyltransferase binding
A	0042802	molecular_function	identical protein binding
A	0043596	cellular_component	nuclear replication fork
A	0043626	cellular_component	PCNA complex
A	0044849	biological_process	estrous cycle
A	0044877	molecular_function	protein-containing complex binding
A	0045739	biological_process	positive regulation of DNA repair
A	0045740	biological_process	positive regulation of DNA replication
A	0046686	biological_process	response to cadmium ion
A	0070062	cellular_component	extracellular exosome
A	0070182	molecular_function	DNA polymerase binding
A	0070301	biological_process	cellular response to hydrogen peroxide
A	0070557	cellular_component	PCNA-p21 complex
A	0071466	biological_process	cellular response to xenobiotic stimulus
A	0071548	biological_process	response to dexamethasone
A	0097421	biological_process	liver regeneration
A	1900264	biological_process	positive regulation of DNA-directed DNA polymerase activity
A	1902065	biological_process	response to L-glutamate
A	1902990	biological_process	mitotic telomere maintenance via semi-conservative replication
B	0000122	biological_process	negative regulation of transcription by RNA polymerase II
B	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
B	0000701	molecular_function	purine-specific mismatch base pair DNA N-glycosylase activity
B	0000781	cellular_component	chromosome, telomeric region
B	0000785	cellular_component	chromatin
B	0001673	cellular_component	male germ cell nucleus
B	0003677	molecular_function	DNA binding
B	0003682	molecular_function	chromatin binding
B	0003684	molecular_function	damaged DNA binding
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005652	cellular_component	nuclear lamina
B	0005654	cellular_component	nucleoplasm
B	0005657	cellular_component	replication fork
B	0005813	cellular_component	centrosome
B	0006260	biological_process	DNA replication
B	0006272	biological_process	leading strand elongation
B	0006275	biological_process	regulation of DNA replication
B	0006281	biological_process	DNA repair
B	0006287	biological_process	base-excision repair, gap-filling
B	0006298	biological_process	mismatch repair
B	0006979	biological_process	response to oxidative stress
B	0007507	biological_process	heart development
B	0016604	cellular_component	nuclear body
B	0019899	molecular_function	enzyme binding
B	0019985	biological_process	translesion synthesis
B	0030331	molecular_function	nuclear estrogen receptor binding
B	0030337	molecular_function	DNA polymerase processivity factor activity
B	0030855	biological_process	epithelial cell differentiation
B	0030894	cellular_component	replisome
B	0030971	molecular_function	receptor tyrosine kinase binding
B	0031297	biological_process	replication fork processing
B	0032077	biological_process	positive regulation of deoxyribonuclease activity
B	0032139	molecular_function	dinucleotide insertion or deletion binding
B	0032355	biological_process	response to estradiol
B	0032405	molecular_function	MutLalpha complex binding
B	0033993	biological_process	response to lipid
B	0034644	biological_process	cellular response to UV
B	0035035	molecular_function	histone acetyltransferase binding
B	0042802	molecular_function	identical protein binding
B	0043596	cellular_component	nuclear replication fork
B	0043626	cellular_component	PCNA complex
B	0044849	biological_process	estrous cycle
B	0044877	molecular_function	protein-containing complex binding
B	0045739	biological_process	positive regulation of DNA repair
B	0045740	biological_process	positive regulation of DNA replication
B	0046686	biological_process	response to cadmium ion
B	0070062	cellular_component	extracellular exosome
B	0070182	molecular_function	DNA polymerase binding
B	0070301	biological_process	cellular response to hydrogen peroxide
B	0070557	cellular_component	PCNA-p21 complex
B	0071466	biological_process	cellular response to xenobiotic stimulus
B	0071548	biological_process	response to dexamethasone
B	0097421	biological_process	liver regeneration
B	1900264	biological_process	positive regulation of DNA-directed DNA polymerase activity
B	1902065	biological_process	response to L-glutamate
B	1902990	biological_process	mitotic telomere maintenance via semi-conservative replication
C	0000122	biological_process	negative regulation of transcription by RNA polymerase II
C	0000307	cellular_component	cyclin-dependent protein kinase holoenzyme complex
C	0000701	molecular_function	purine-specific mismatch base pair DNA N-glycosylase activity
C	0000781	cellular_component	chromosome, telomeric region
C	0000785	cellular_component	chromatin
C	0001673	cellular_component	male germ cell nucleus
C	0003677	molecular_function	DNA binding
C	0003682	molecular_function	chromatin binding
C	0003684	molecular_function	damaged DNA binding
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005652	cellular_component	nuclear lamina
C	0005654	cellular_component	nucleoplasm
C	0005657	cellular_component	replication fork
C	0005813	cellular_component	centrosome
C	0006260	biological_process	DNA replication
C	0006272	biological_process	leading strand elongation
C	0006275	biological_process	regulation of DNA replication
C	0006281	biological_process	DNA repair
C	0006287	biological_process	base-excision repair, gap-filling
C	0006298	biological_process	mismatch repair
C	0006979	biological_process	response to oxidative stress
C	0007507	biological_process	heart development
C	0016604	cellular_component	nuclear body
C	0019899	molecular_function	enzyme binding
C	0019985	biological_process	translesion synthesis
C	0030331	molecular_function	nuclear estrogen receptor binding
C	0030337	molecular_function	DNA polymerase processivity factor activity
C	0030855	biological_process	epithelial cell differentiation
C	0030894	cellular_component	replisome
C	0030971	molecular_function	receptor tyrosine kinase binding
C	0031297	biological_process	replication fork processing
C	0032077	biological_process	positive regulation of deoxyribonuclease activity
C	0032139	molecular_function	dinucleotide insertion or deletion binding
C	0032355	biological_process	response to estradiol
C	0032405	molecular_function	MutLalpha complex binding
C	0033993	biological_process	response to lipid
C	0034644	biological_process	cellular response to UV
C	0035035	molecular_function	histone acetyltransferase binding
C	0042802	molecular_function	identical protein binding
C	0043596	cellular_component	nuclear replication fork
C	0043626	cellular_component	PCNA complex
C	0044849	biological_process	estrous cycle
C	0044877	molecular_function	protein-containing complex binding
C	0045739	biological_process	positive regulation of DNA repair
C	0045740	biological_process	positive regulation of DNA replication
C	0046686	biological_process	response to cadmium ion
C	0070062	cellular_component	extracellular exosome
C	0070182	molecular_function	DNA polymerase binding
C	0070301	biological_process	cellular response to hydrogen peroxide
C	0070557	cellular_component	PCNA-p21 complex
C	0071466	biological_process	cellular response to xenobiotic stimulus
C	0071548	biological_process	response to dexamethasone
C	0097421	biological_process	liver regeneration
C	1900264	biological_process	positive regulation of DNA-directed DNA polymerase activity
C	1902065	biological_process	response to L-glutamate
C	1902990	biological_process	mitotic telomere maintenance via semi-conservative replication
X	0000287	molecular_function	magnesium ion binding
X	0000724	biological_process	double-strand break repair via homologous recombination
X	0000781	cellular_component	chromosome, telomeric region
X	0003677	molecular_function	DNA binding
X	0003684	molecular_function	damaged DNA binding
X	0003690	molecular_function	double-stranded DNA binding
X	0003824	molecular_function	catalytic activity
X	0004518	molecular_function	nuclease activity
X	0004519	molecular_function	endonuclease activity
X	0004520	molecular_function	DNA endonuclease activity
X	0004523	molecular_function	RNA-DNA hybrid ribonuclease activity
X	0004527	molecular_function	exonuclease activity
X	0005515	molecular_function	protein binding
X	0005634	cellular_component	nucleus
X	0005654	cellular_component	nucleoplasm
X	0005730	cellular_component	nucleolus
X	0005739	cellular_component	mitochondrion
X	0006260	biological_process	DNA replication
X	0006281	biological_process	DNA repair
X	0006284	biological_process	base-excision repair
X	0006287	biological_process	base-excision repair, gap-filling
X	0006302	biological_process	double-strand break repair
X	0006310	biological_process	DNA recombination
X	0007613	biological_process	memory
X	0008309	molecular_function	double-stranded DNA exodeoxyribonuclease activity
X	0008409	molecular_function	5'-3' exonuclease activity
X	0009650	biological_process	UV protection
X	0016020	cellular_component	membrane
X	0016788	molecular_function	hydrolase activity, acting on ester bonds
X	0017108	molecular_function	5'-flap endonuclease activity
X	0030145	molecular_function	manganese ion binding
X	0032201	biological_process	telomere maintenance via semi-conservative replication
X	0032991	cellular_component	protein-containing complex
X	0043137	biological_process	DNA replication, removal of RNA primer
X	0045876	biological_process	positive regulation of sister chromatid cohesion
X	0046872	molecular_function	metal ion binding
X	0048256	molecular_function	flap endonuclease activity
X	0090304	biological_process	nucleic acid metabolic process
Y	0000287	molecular_function	magnesium ion binding
Y	0000724	biological_process	double-strand break repair via homologous recombination
Y	0000781	cellular_component	chromosome, telomeric region
Y	0003677	molecular_function	DNA binding
Y	0003684	molecular_function	damaged DNA binding
Y	0003690	molecular_function	double-stranded DNA binding
Y	0003824	molecular_function	catalytic activity
Y	0004518	molecular_function	nuclease activity
Y	0004519	molecular_function	endonuclease activity
Y	0004520	molecular_function	DNA endonuclease activity
Y	0004523	molecular_function	RNA-DNA hybrid ribonuclease activity
Y	0004527	molecular_function	exonuclease activity
Y	0005515	molecular_function	protein binding
Y	0005634	cellular_component	nucleus
Y	0005654	cellular_component	nucleoplasm
Y	0005730	cellular_component	nucleolus
Y	0005739	cellular_component	mitochondrion
Y	0006260	biological_process	DNA replication
Y	0006281	biological_process	DNA repair
Y	0006284	biological_process	base-excision repair
Y	0006287	biological_process	base-excision repair, gap-filling
Y	0006302	biological_process	double-strand break repair
Y	0006310	biological_process	DNA recombination
Y	0007613	biological_process	memory
Y	0008309	molecular_function	double-stranded DNA exodeoxyribonuclease activity
Y	0008409	molecular_function	5'-3' exonuclease activity
Y	0009650	biological_process	UV protection
Y	0016020	cellular_component	membrane
Y	0016788	molecular_function	hydrolase activity, acting on ester bonds
Y	0017108	molecular_function	5'-flap endonuclease activity
Y	0030145	molecular_function	manganese ion binding
Y	0032201	biological_process	telomere maintenance via semi-conservative replication
Y	0032991	cellular_component	protein-containing complex
Y	0043137	biological_process	DNA replication, removal of RNA primer
Y	0045876	biological_process	positive regulation of sister chromatid cohesion
Y	0046872	molecular_function	metal ion binding
Y	0048256	molecular_function	flap endonuclease activity
Y	0090304	biological_process	nucleic acid metabolic process
Z	0000287	molecular_function	magnesium ion binding
Z	0000724	biological_process	double-strand break repair via homologous recombination
Z	0000781	cellular_component	chromosome, telomeric region
Z	0003677	molecular_function	DNA binding
Z	0003684	molecular_function	damaged DNA binding
Z	0003690	molecular_function	double-stranded DNA binding
Z	0003824	molecular_function	catalytic activity
Z	0004518	molecular_function	nuclease activity
Z	0004519	molecular_function	endonuclease activity
Z	0004520	molecular_function	DNA endonuclease activity
Z	0004523	molecular_function	RNA-DNA hybrid ribonuclease activity
Z	0004527	molecular_function	exonuclease activity
Z	0005515	molecular_function	protein binding
Z	0005634	cellular_component	nucleus
Z	0005654	cellular_component	nucleoplasm
Z	0005730	cellular_component	nucleolus
Z	0005739	cellular_component	mitochondrion
Z	0006260	biological_process	DNA replication
Z	0006281	biological_process	DNA repair
Z	0006284	biological_process	base-excision repair
Z	0006287	biological_process	base-excision repair, gap-filling
Z	0006302	biological_process	double-strand break repair
Z	0006310	biological_process	DNA recombination
Z	0007613	biological_process	memory
Z	0008309	molecular_function	double-stranded DNA exodeoxyribonuclease activity
Z	0008409	molecular_function	5'-3' exonuclease activity
Z	0009650	biological_process	UV protection
Z	0016020	cellular_component	membrane
Z	0016788	molecular_function	hydrolase activity, acting on ester bonds
Z	0017108	molecular_function	5'-flap endonuclease activity
Z	0030145	molecular_function	manganese ion binding
Z	0032201	biological_process	telomere maintenance via semi-conservative replication
Z	0032991	cellular_component	protein-containing complex
Z	0043137	biological_process	DNA replication, removal of RNA primer
Z	0045876	biological_process	positive regulation of sister chromatid cohesion
Z	0046872	molecular_function	metal ion binding
Z	0048256	molecular_function	flap endonuclease activity
Z	0090304	biological_process	nucleic acid metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG X 1001

Chain	Residue
X	ASP34
X	ASP86
X	GLU158
X	GLU160
X	MG1002

---

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG X 1002

Chain	Residue
X	MG1001
X	GLU158
X	GLU160
X	ASP181
X	TYR234

---

site_id	AC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG Y 1003

Chain	Residue
Y	GLU158
Y	MG1004

---

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG Y 1004

Chain	Residue
Y	GLU160
Y	ASP181
Y	ASP233
Y	MG1003

---

Functional Information from PROSITE/UniProt

site_id	PS00293
Number of Residues	19
Details	PCNA_2 Proliferating cell nuclear antigen signature 2. RCDRnlaMgvnLtSMsKIL

Chain	Residue	Details
A	ARG61-LEU79

---

site_id	PS00841
Number of Residues	15
Details	XPG_1 XPG protein signature 1. IKPvYVFDGkpPqLK

Chain	Residue	Details
X	ILE79-LYS93

---

site_id	PS00842
Number of Residues	15
Details	XPG_2 XPG protein signature 2. GIPYLdAPsEAEASC

Chain	Residue	Details
X	GLY149-CYS163

---

site_id	PS01251
Number of Residues	24
Details	PCNA_1 Proliferating cell nuclear antigen signature 1. GVnLqSMDsSHVsLVqLtLrsegF

Chain	Residue	Details
A	GLY34-PHE57

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	57
Details	DNA_BIND: DNA_BIND => ECO:0000255

Chain	Residue	Details
A	ARG61-LYS80
B	ARG61-LYS80
C	ARG61-LYS80

---

site_id	SWS_FT_FI2
Number of Residues	3
Details	MOD_RES: N6-acetyllysine => ECO:0000269|PubMed:19419956

Chain	Residue	Details
A	LYS14
B	LYS14
C	LYS14
Y	ARG47
Y	ARG70
Y	GLY231
Z	ARG47
Z	ARG70
Z	GLY231

---

site_id	SWS_FT_FI3
Number of Residues	9
Details	MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861

Chain	Residue	Details
A	LYS77
A	LYS80
A	LYS248
B	LYS77
B	LYS80
B	LYS248
C	LYS77
C	LYS80
C	LYS248

---

site_id	SWS_FT_FI4
Number of Residues	3
Details	MOD_RES: Phosphotyrosine; by EGFR => ECO:0000269|PubMed:17115032, ECO:0000269|PubMed:38459011

Chain	Residue	Details
A	TYR211
B	TYR211
C	TYR211
Y	ASP181
Z	GLU160
Z	ASP181

---

site_id	SWS_FT_FI5
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:17108083, ECO:0000269|PubMed:17130289

Chain	Residue	Details
A	LYS164
B	LYS164
C	LYS164

---

site_id	SWS_FT_FI6
Number of Residues	6
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733

Chain	Residue	Details
X	ASP233
A	LYS254
Z	ASP233
B	LYS254
C	LYS254

---

site_id	SWS_FT_FI7
Number of Residues	12
Details	MOD_RES: Symmetric dimethylarginine; by PRMT5 => ECO:0000255|HAMAP-Rule:MF_03140, ECO:0000269|PubMed:20729856

Chain	Residue	Details
X	ARG19
Z	ARG100
Z	ARG104
Z	ARG192
X	ARG100
X	ARG104
X	ARG192
Y	ARG19
Y	ARG100
Y	ARG104
Y	ARG192
Z	ARG19

---

site_id	SWS_FT_FI8
Number of Residues	3
Details	MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861

Chain	Residue	Details
X	LYS80
Y	LYS80
Z	LYS80

---

site_id	SWS_FT_FI9
Number of Residues	3
Details	MOD_RES: Phosphoserine; by CDK2 => ECO:0000255|HAMAP-Rule:MF_03140, ECO:0000269|PubMed:20729856

Chain	Residue	Details
X	SER187
Y	SER187
Z	SER187

---

site_id	SWS_FT_FI10
Number of Residues	3
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:20068231

Chain	Residue	Details
X	SER197
Y	SER197
Z	SER197

---

site_id	SWS_FT_FI11
Number of Residues	9
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163

Chain	Residue	Details
X	SER255
X	SER293
X	SER335
Y	SER255
Y	SER293
Y	SER335
Z	SER255
Z	SER293
Z	SER335

---

site_id	SWS_FT_FI12
Number of Residues	3
Details	MOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163

Chain	Residue	Details
X	THR336
Y	THR336
Z	THR336

---

site_id	SWS_FT_FI13
Number of Residues	9
Details	MOD_RES: N6-acetyllysine => ECO:0000255|HAMAP-Rule:MF_03140, ECO:0000269|PubMed:11430825

Chain	Residue	Details
X	LYS354
X	LYS377
X	LYS380
Y	LYS354
Y	LYS377
Y	LYS380
Z	LYS354
Z	LYS377
Z	LYS380

---

site_id	SWS_FT_FI14
Number of Residues	3
Details	MOD_RES: Phosphothreonine => ECO:0007744|PubMed:20068231

Chain	Residue	Details
X	THR364
Y	THR364
Z	THR364

---

site_id	SWS_FT_FI15
Number of Residues	3
Details	MOD_RES: N6-acetyllysine => ECO:0000255|HAMAP-Rule:MF_03140, ECO:0000269|PubMed:11430825, ECO:0007744|PubMed:19608861

Chain	Residue	Details
X	LYS375
Y	LYS375
Z	LYS375

---

Catalytic Information from CSA

site_id	CSA1
Number of Residues	1
Details	Annotated By Reference To The Literature 1exn

Chain	Residue	Details
Y	SER101

---

site_id	CSA2
Number of Residues	1
Details	Annotated By Reference To The Literature 1exn

Chain	Residue	Details
Z	SER101

---