5WN2

APE1 exonuclease substrate complex with phosphoglycolate

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003677	molecular_function	DNA binding
A	0003824	molecular_function	catalytic activity
A	0004518	molecular_function	nuclease activity
A	0004519	molecular_function	endonuclease activity
A	0006281	biological_process	DNA repair
B	0003677	molecular_function	DNA binding
B	0003824	molecular_function	catalytic activity
B	0004518	molecular_function	nuclease activity
B	0004519	molecular_function	endonuclease activity
B	0006281	biological_process	DNA repair

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	binding site for residue NA A 401

Chain	Residue
A	LYS125
A	TYR128

---

site_id	AC2
Number of Residues	5
Details	binding site for residue EDO B 401

Chain	Residue
B	GLN137
B	ALA138
B	LEU140
B	PHE162
B	ASP163

---

site_id	AC3
Number of Residues	2
Details	binding site for residue EDO B 402

Chain	Residue
B	GLY198
B	ARG202

---

site_id	AC4
Number of Residues	4
Details	binding site for residue EDO B 403

Chain	Residue
B	HIS215
B	GLU216
B	ARG237
B	GLY241

---

site_id	AC5
Number of Residues	4
Details	binding site for residue EDO C 101

Chain	Residue
B	MET270
C	DC11
D	DG1
E	DG1

---

site_id	AC6
Number of Residues	11
Details	binding site for residue PGA D 101

Chain	Residue
A	GLN96
A	TYR171
A	ASN174
A	ASN210
A	ASN212
A	PHE266
A	LEU282
A	HIS309
A	HOH507
D	DG9
D	HOH202

---

site_id	AC7
Number of Residues	6
Details	binding site for residue CA E 101

Chain	Residue
B	TYR171
B	ASN174
B	HOH501
B	HOH579
E	DC21
E	HOH209

---

site_id	AC8
Number of Residues	1
Details	binding site for residue CA E 102

Chain	Residue
B	ALA230

---

site_id	AC9
Number of Residues	3
Details	binding site for residue NA E 103

Chain	Residue
B	MET270
E	DG1
E	DG2

---

Functional Information from PROSITE/UniProt

site_id	PS00727
Number of Residues	17
Details	AP_NUCLEASE_F1_2 AP endonucleases family 1 signature 2. DSFRHlypntpyaYTFW

Chain	Residue	Details
A	ASP251-TRP267

---

site_id	PS00728
Number of Residues	12
Details	AP_NUCLEASE_F1_3 AP endonucleases family 1 signature 3. NvGwRLDYfLlS

Chain	Residue	Details
A	ASN277-SER288

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	58
Details	Region: {"description":"Mitochondrial targeting sequence (MTS)"}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	32
Details	Motif: {"description":"Nuclear export signal (NES)"}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	Active site: {"evidences":[{"source":"PubMed","id":"15380100","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"PubMed","id":"9351835","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1BIX","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"PROSITE-ProRule","id":"PRU00764","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00764","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	Site: {"description":"Transition state stabilizer","evidences":[{"source":"PubMed","id":"8932375","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	2
Details	Site: {"description":"Important for catalytic activity","evidences":[{"source":"PubMed","id":"21762700","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9804799","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	Site: {"description":"Interaction with DNA substrate"}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	4
Details	Modified residue: {"description":"S-nitrosocysteine; alternate","evidences":[{"source":"PubMed","id":"17403694","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine; by CDK5","evidences":[{"source":"UniProtKB","id":"P28352","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	2
Details	Modified residue: {"description":"S-nitrosocysteine","evidences":[{"source":"PubMed","id":"17403694","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	8
Details	M-CSA 510

Chain	Residue	Details
A	ASP70	metal ligand
A	GLN96	metal ligand
A	TYR171	electrostatic stabiliser, metal ligand
A	ASN210	increase nucleophilicity, metal ligand, proton acceptor
A	ASN212
A	ASP283	electrostatic stabiliser
A	ASP308	metal ligand
A	HIS309	electrostatic stabiliser, metal ligand

---

site_id	MCSA2
Number of Residues	8
Details	M-CSA 510

Chain	Residue	Details
B	ASP70	metal ligand
B	GLN96	metal ligand
B	TYR171	electrostatic stabiliser, metal ligand
B	ASN210	increase nucleophilicity, metal ligand, proton acceptor
B	ASN212
B	ASP283	electrostatic stabiliser
B	ASP308	metal ligand
B	HIS309	electrostatic stabiliser, metal ligand

---