Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5TVP

SUMO2 bound to Mouse Tdp2 catalytic domain with a 5'-phosphorylated DNA ternary complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
B	0003824	molecular_function	catalytic activity
E	0003824	molecular_function	catalytic activity
G	0003824	molecular_function	catalytic activity
I	0003824	molecular_function	catalytic activity
K	0003824	molecular_function	catalytic activity
M	0003824	molecular_function	catalytic activity
O	0003824	molecular_function	catalytic activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	7
Details	binding site for residue PO4 I 401

Chain	Residue
I	LEU275
I	ARG276
I	ASP277
I	HIS323
I	ARG324
I	ARG327
I	HOH544

site_id	AC2
Number of Residues	6
Details	binding site for residue EDO I 402

Chain	Residue
I	LYS349
I	HOH518
M	ALA311
M	HOH513
I	LEU347
I	GLU348

site_id	AC3
Number of Residues	7
Details	binding site for residue EDO I 403

Chain	Residue
I	CYS149
I	TYR153
I	VAL345
I	GLY346
I	LEU347
I	GLU348
I	HOH514

site_id	AC4
Number of Residues	6
Details	binding site for residue PO4 O 401

Chain	Residue
O	LEU275
O	ARG276
O	ASP277
O	HIS323
O	ARG324
O	ARG327

site_id	AC5
Number of Residues	3
Details	binding site for residue EDO O 402

Chain	Residue
O	GLU348
O	LYS349
O	HOH526

site_id	AC6
Number of Residues	5
Details	binding site for residue EDO O 403

Chain	Residue
O	LEU139
O	PRO140
O	PRO166
O	TYR167
O	TYR170

site_id	AC7
Number of Residues	1
Details	binding site for residue EDO O 404

Chain	Residue
O	ASP343

site_id	AC8
Number of Residues	9
Details	binding site for residue PO4 E 401

Chain	Residue
E	LEU275
E	ASP277
E	HIS323
E	ARG324
E	ARG327
E	PO4403
E	HOH519
E	HOH535
E	HOH541

site_id	AC9
Number of Residues	6
Details	binding site for residue PO4 E 403

Chain	Residue
E	ASP277
E	ARG324
E	ARG327
E	PO4401
E	HOH519
E	HOH559

site_id	AD1
Number of Residues	6
Details	binding site for residue PO4 G 401

Chain	Residue
G	LEU275
G	ARG276
G	ASP277
G	HIS323
G	ARG324
G	ARG327

site_id	AD2
Number of Residues	3
Details	binding site for residue EDO G 402

Chain	Residue
G	LEU347
G	GLU348
G	LYS349

site_id	AD3
Number of Residues	3
Details	binding site for residue EDO G 403

Chain	Residue
G	ILE180
G	THR182
G	GLN204

site_id	AD4
Number of Residues	2
Details	binding site for residue EDO G 404

Chain	Residue
G	PHE201
G	HOH533

site_id	AD5
Number of Residues	2
Details	binding site for residue EDO G 405

Chain	Residue
G	LYS252
G	CYS283

site_id	AD6
Number of Residues	6
Details	binding site for residue PO4 B 401

Chain	Residue
B	LEU275
B	ARG276
B	ASP277
B	HIS323
B	ARG324
B	ARG327

site_id	AD7
Number of Residues	5
Details	binding site for residue EDO B 402

Chain	Residue
B	LEU139
B	PRO140
B	TYR167
B	TYR170
B	HOH537

site_id	AD8
Number of Residues	7
Details	binding site for residue PO4 A 401

Chain	Residue
A	LEU275
A	ASP277
A	HIS323
A	ARG324
A	ARG327
A	HOH504
A	HOH514

site_id	AD9
Number of Residues	4
Details	binding site for residue EDO A 402

Chain	Residue
A	LEU347
A	GLU348
A	LYS349
A	HOH529

site_id	AE1
Number of Residues	6
Details	binding site for residue PO4 K 401

Chain	Residue
K	LEU275
K	ARG276
K	ASP277
K	HIS323
K	ARG324
K	ARG327

site_id	AE2
Number of Residues	5
Details	binding site for residue EDO K 402

Chain	Residue
E	HOH507
K	LEU347
K	GLU348
K	LYS349
K	HOH535

site_id	AE3
Number of Residues	3
Details	binding site for residue EDO K 403

Chain	Residue
K	LEU139
K	PRO166
K	HOH543

site_id	AE4
Number of Residues	7
Details	binding site for residue PO4 M 401

Chain	Residue
M	LEU275
M	ARG276
M	ASP277
M	HIS323
M	ARG324
M	ARG327
M	HOH530

site_id	AE5
Number of Residues	1
Details	binding site for residue CL M 402

Chain	Residue
M	LYS349

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	32
Details	Region: {"description":"Interaction with 5' end of substrate DNA","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27060144","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	104
Details	Region: {"description":"Interaction with 5' end of substrate DNA","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24808172","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27060144","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	8
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"27060144","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27099339","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4GYZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4GZ2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J42","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24808172","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27099339","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4GYZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4GZ1","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4GZ2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PUQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5HT2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5INP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J42","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	8
Details	Site: {"description":"Interaction with 5' end of substrate DNA","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27060144","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	16
Details	Site: {"description":"Interaction with 5' end of substrate DNA","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24808172","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27060144","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	8
Details	Site: {"description":"Interaction with 5' end of substrate DNA","evidences":[{"source":"PubMed","id":"23104055","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"UniProtKB","id":"P61956","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)