6WCD

Crystal Structure of Xenopus laevis APE2 Catalytic Domain

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

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue MG A 401

Chain	Residue
A	ASN9
A	GLU34
A	HOH515
A	HOH517
A	HOH561
A	HOH657

---

site_id	AC2
Number of Residues	6
Details	binding site for residue MES A 402

Chain	Residue
A	GLU327
A	LYS334
A	HOH841
A	LEU287
A	ASP288
A	PHE306

---

site_id	AC3
Number of Residues	9
Details	binding site for residue BU1 A 403

Chain	Residue
A	MET1
A	ASP28
A	LEU41
A	SER75
A	GLN310
A	PRO311
A	HOH521
A	HOH544
A	HOH631

---

site_id	AC4
Number of Residues	3
Details	binding site for residue EDO A 404

Chain	Residue
A	LYS19
A	GLU50
A	GLY51

---

site_id	AC5
Number of Residues	7
Details	binding site for residue BU1 A 405

Chain	Residue
A	ARG12
A	ALA13
A	ARG15
A	HOH529
A	HOH543
A	HOH556
A	HOH822

---

site_id	AC6
Number of Residues	7
Details	binding site for residue BU1 A 406

Chain	Residue
A	GLU107
A	GLU108
A	LYS157
A	ASN185
A	THR186
A	ASN205
A	GLY207

---

Functional Information from PROSITE/UniProt

site_id	PS00726
Number of Residues	10
Details	AP_NUCLEASE_F1_1 AP endonucleases family 1 signature 1. ADIICLQETK

Chain	Residue	Details
A	ALA27-LYS36

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	ACT_SITE: ACT_SITE => ECO:0000250|UniProtKB:P27695

Chain	Residue	Details
A	TYR142

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	ACT_SITE: Proton donor/acceptor => ECO:0000269|PubMed:32516598

Chain	Residue	Details
A	ASP183

---

site_id	SWS_FT_FI3
Number of Residues	1
Details	ACT_SITE: Proton acceptor => ECO:0000255|PROSITE-ProRule:PRU00764

Chain	Residue	Details
A	HIS300

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	BINDING: BINDING => ECO:0000269|PubMed:32516598, ECO:0007744|PDB:6WCD

Chain	Residue	Details
A	ASN9

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00764, ECO:0000269|PubMed:32516598, ECO:0007744|PDB:6WCD

Chain	Residue	Details
A	GLU34
A	ASP299

---

site_id	SWS_FT_FI6
Number of Residues	3
Details	BINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00764

Chain	Residue	Details
A	ASP183
A	ASN185
A	HIS300

---

site_id	SWS_FT_FI7
Number of Residues	1
Details	SITE: Transition state stabilizer => ECO:0000250|UniProtKB:P27695

Chain	Residue	Details
A	ASN185

---

site_id	SWS_FT_FI8
Number of Residues	1
Details	SITE: Important for catalytic activity => ECO:0000250|UniProtKB:P27695

Chain	Residue	Details
A	ASP273

---

site_id	SWS_FT_FI9
Number of Residues	1
Details	SITE: Interaction with DNA substrate => ECO:0000250|UniProtKB:P27695

Chain	Residue	Details
A	HIS300

---