1K3X

Crystal structure of a trapped reaction intermediate of the DNA repair enzyme Endonuclease VIII with Brominated-DNA

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000703	molecular_function	oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity
A	0003676	molecular_function	nucleic acid binding
A	0003677	molecular_function	DNA binding
A	0003684	molecular_function	damaged DNA binding
A	0003824	molecular_function	catalytic activity
A	0003906	molecular_function	DNA-(apurinic or apyrimidinic site) endonuclease activity
A	0006281	biological_process	DNA repair
A	0006284	biological_process	base-excision repair
A	0006974	biological_process	DNA damage response
A	0008270	molecular_function	zinc ion binding
A	0016787	molecular_function	hydrolase activity
A	0016798	molecular_function	hydrolase activity, acting on glycosyl bonds
A	0016799	molecular_function	hydrolase activity, hydrolyzing N-glycosyl compounds
A	0016829	molecular_function	lyase activity
A	0019104	molecular_function	DNA N-glycosylase activity
A	0046872	molecular_function	metal ion binding
A	0140078	molecular_function	class I DNA-(apurinic or apyrimidinic site) endonuclease activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN A 501

Chain	Residue
A	CYS237
A	CYS240
A	CYS257
A	CYS260

---

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 A 551

Chain	Residue
A	ARG8
A	ASN12
A	HOH657
A	HOH1022
A	HOH1025

---

site_id	AC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 A 552

Chain	Residue
A	ARG112
A	LYS140
A	ALA191
A	ASP195
A	HOH665
A	HOH757
A	HOH856
A	HOH957

---

site_id	AC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 A 553

Chain	Residue
A	ASN190
A	ALA191
A	HOH630
A	HOH828
A	HOH884
A	HOH941

---

site_id	AC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 A 554

Chain	Residue
A	PRO1
A	HOH681
A	HOH961

---

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 A 555

Chain	Residue
A	HOH648
A	HOH652
A	HOH734
A	HOH994
A	HOH1071

---

site_id	AC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL A 511

Chain	Residue
A	ARG147
A	ARG151
A	HOH685
A	HOH773

---

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL A 512

Chain	Residue
A	ASP195
A	HIS199
A	HOH684
A	HOH691
A	HOH722
A	HOH752
A	HOH932

---

site_id	AC9
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL A 513

Chain	Residue
A	SER37
A	GLN38
A	GLY179
A	LEU180
A	HIS184
A	GLN193
A	HIS262
A	HOH671
A	HOH689
A	HOH737

---

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 514

Chain	Residue
A	THR117
A	ARG142
A	HOH655
A	HOH711
A	HOH998
A	HOH1054

---

Functional Information from PROSITE/UniProt

site_id	PS01242
Number of Residues	25
Details	ZF_FPG_1 Zinc finger FPG-type signature. Cer..CGsiIekttlss....RPfyWCpgCQ

Chain	Residue	Details
A	CYS237-GLN261

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	ACT_SITE: Schiff-base intermediate with DNA

Chain	Residue	Details
A	GLU2

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	ACT_SITE: Proton donor => ECO:0000305

Chain	Residue	Details
A	GLY3

---

site_id	SWS_FT_FI3
Number of Residues	1
Details	ACT_SITE: Proton donor; for beta-elimination activity => ECO:0000305

Chain	Residue	Details
A	ALA53

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	ACT_SITE: Proton donor; for delta-elimination activity => ECO:0000305

Chain	Residue	Details
A	PRO253

---

site_id	SWS_FT_FI5
Number of Residues	3
Details	BINDING: BINDING => ECO:0000269|PubMed:11847126

Chain	Residue	Details
A	LEU70
A	VAL125
A	TYR169

---

Catalytic Information from CSA

site_id	CSA1
Number of Residues	4
Details	Annotated By Reference To The Literature 1k82

Chain	Residue	Details
A	GLU2
A	LYS52
A	PRO1
A	ARG252

---