2ZBK

Crystal structure of an intact type II DNA topoisomerase: insights into DNA transfer mechanisms

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0000287	molecular_function	magnesium ion binding
A	0003677	molecular_function	DNA binding
A	0003824	molecular_function	catalytic activity
A	0003916	molecular_function	DNA topoisomerase activity
A	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005694	cellular_component	chromosome
A	0006259	biological_process	DNA metabolic process
A	0006260	biological_process	DNA replication
A	0006265	biological_process	DNA topological change
A	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
A	0016853	molecular_function	isomerase activity
A	0046872	molecular_function	metal ion binding
B	0000166	molecular_function	nucleotide binding
B	0003676	molecular_function	nucleic acid binding
B	0003677	molecular_function	DNA binding
B	0003916	molecular_function	DNA topoisomerase activity
B	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
B	0005515	molecular_function	protein binding
B	0005524	molecular_function	ATP binding
B	0006260	biological_process	DNA replication
B	0006265	biological_process	DNA topological change
B	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
B	0016853	molecular_function	isomerase activity
B	0042802	molecular_function	identical protein binding
C	0000166	molecular_function	nucleotide binding
C	0000287	molecular_function	magnesium ion binding
C	0003677	molecular_function	DNA binding
C	0003824	molecular_function	catalytic activity
C	0003916	molecular_function	DNA topoisomerase activity
C	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP binding
C	0005694	cellular_component	chromosome
C	0006259	biological_process	DNA metabolic process
C	0006260	biological_process	DNA replication
C	0006265	biological_process	DNA topological change
C	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
C	0016853	molecular_function	isomerase activity
C	0046872	molecular_function	metal ion binding
D	0000166	molecular_function	nucleotide binding
D	0003676	molecular_function	nucleic acid binding
D	0003677	molecular_function	DNA binding
D	0003916	molecular_function	DNA topoisomerase activity
D	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
D	0005515	molecular_function	protein binding
D	0005524	molecular_function	ATP binding
D	0006260	biological_process	DNA replication
D	0006265	biological_process	DNA topological change
D	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
D	0016853	molecular_function	isomerase activity
D	0042802	molecular_function	identical protein binding
E	0000166	molecular_function	nucleotide binding
E	0000287	molecular_function	magnesium ion binding
E	0003677	molecular_function	DNA binding
E	0003824	molecular_function	catalytic activity
E	0003916	molecular_function	DNA topoisomerase activity
E	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
E	0005515	molecular_function	protein binding
E	0005524	molecular_function	ATP binding
E	0005694	cellular_component	chromosome
E	0006259	biological_process	DNA metabolic process
E	0006260	biological_process	DNA replication
E	0006265	biological_process	DNA topological change
E	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
E	0016853	molecular_function	isomerase activity
E	0046872	molecular_function	metal ion binding
F	0000166	molecular_function	nucleotide binding
F	0003676	molecular_function	nucleic acid binding
F	0003677	molecular_function	DNA binding
F	0003916	molecular_function	DNA topoisomerase activity
F	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
F	0005515	molecular_function	protein binding
F	0005524	molecular_function	ATP binding
F	0006260	biological_process	DNA replication
F	0006265	biological_process	DNA topological change
F	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
F	0016853	molecular_function	isomerase activity
F	0042802	molecular_function	identical protein binding
G	0000166	molecular_function	nucleotide binding
G	0000287	molecular_function	magnesium ion binding
G	0003677	molecular_function	DNA binding
G	0003824	molecular_function	catalytic activity
G	0003916	molecular_function	DNA topoisomerase activity
G	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
G	0005515	molecular_function	protein binding
G	0005524	molecular_function	ATP binding
G	0005694	cellular_component	chromosome
G	0006259	biological_process	DNA metabolic process
G	0006260	biological_process	DNA replication
G	0006265	biological_process	DNA topological change
G	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
G	0016853	molecular_function	isomerase activity
G	0046872	molecular_function	metal ion binding
H	0000166	molecular_function	nucleotide binding
H	0003676	molecular_function	nucleic acid binding
H	0003677	molecular_function	DNA binding
H	0003916	molecular_function	DNA topoisomerase activity
H	0003918	molecular_function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
H	0005515	molecular_function	protein binding
H	0005524	molecular_function	ATP binding
H	0006260	biological_process	DNA replication
H	0006265	biological_process	DNA topological change
H	0009330	cellular_component	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
H	0016853	molecular_function	isomerase activity
H	0042802	molecular_function	identical protein binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	9
Details	BINDING SITE FOR RESIDUE RDC B 531

Chain	Residue
B	LEU39
B	SER43
B	ALA46
B	ASP76
B	GLY80
B	ILE81
B	VAL112
B	THR170
B	VAL172

---

site_id	AC2
Number of Residues	9
Details	BINDING SITE FOR RESIDUE RDC D 531

Chain	Residue
D	LEU39
D	ASN42
D	SER43
D	ASP45
D	ALA46
D	ASP76
D	GLY80
D	VAL112
D	THR170

---

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE RDC F 531

Chain	Residue
F	ASN42
F	SER43
F	ASP45
F	ALA46
F	ASP76
F	GLY80
F	VAL112
F	THR170
F	VAL172

---

site_id	AC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE RDC H 531

Chain	Residue
H	LEU39
H	SER43
H	ASP76
H	GLY80
H	ILE81
H	VAL112
H	THR170
H	VAL172

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"O-(5'-phospho-DNA)-tyrosine intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU01385","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11485995","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00132","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	32
Details	Binding site: {"evidences":[{"source":"PubMed","id":"12505993","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15939019","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1MX0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z59","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5A","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5B","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5C","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"12505993","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15939019","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1MX0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5A","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5B","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Z5C","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"12505993","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1MX0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---