Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5D0K

Structure of UbE2D2:RNF165:Ub complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0000209	biological_process	protein polyubiquitination
A	0004842	molecular_function	ubiquitin-protein transferase activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005829	cellular_component	cytosol
A	0006511	biological_process	ubiquitin-dependent protein catabolic process
A	0016567	biological_process	protein ubiquitination
A	0016740	molecular_function	transferase activity
A	0032991	cellular_component	protein-containing complex
A	0036211	biological_process	protein modification process
A	0051865	biological_process	protein autoubiquitination
A	0061630	molecular_function	ubiquitin protein ligase activity
A	0061631	molecular_function	ubiquitin conjugating enzyme activity
A	0070062	cellular_component	extracellular exosome
A	0070936	biological_process	protein K48-linked ubiquitination
C	0008270	molecular_function	zinc ion binding
C	0061630	molecular_function	ubiquitin protein ligase activity
D	0000166	molecular_function	nucleotide binding
D	0000209	biological_process	protein polyubiquitination
D	0004842	molecular_function	ubiquitin-protein transferase activity
D	0005515	molecular_function	protein binding
D	0005524	molecular_function	ATP binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005829	cellular_component	cytosol
D	0006511	biological_process	ubiquitin-dependent protein catabolic process
D	0016567	biological_process	protein ubiquitination
D	0016740	molecular_function	transferase activity
D	0032991	cellular_component	protein-containing complex
D	0036211	biological_process	protein modification process
D	0051865	biological_process	protein autoubiquitination
D	0061630	molecular_function	ubiquitin protein ligase activity
D	0061631	molecular_function	ubiquitin conjugating enzyme activity
D	0070062	cellular_component	extracellular exosome
D	0070936	biological_process	protein K48-linked ubiquitination
F	0008270	molecular_function	zinc ion binding
F	0061630	molecular_function	ubiquitin protein ligase activity
G	0000166	molecular_function	nucleotide binding
G	0000209	biological_process	protein polyubiquitination
G	0004842	molecular_function	ubiquitin-protein transferase activity
G	0005515	molecular_function	protein binding
G	0005524	molecular_function	ATP binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005829	cellular_component	cytosol
G	0006511	biological_process	ubiquitin-dependent protein catabolic process
G	0016567	biological_process	protein ubiquitination
G	0016740	molecular_function	transferase activity
G	0032991	cellular_component	protein-containing complex
G	0036211	biological_process	protein modification process
G	0051865	biological_process	protein autoubiquitination
G	0061630	molecular_function	ubiquitin protein ligase activity
G	0061631	molecular_function	ubiquitin conjugating enzyme activity
G	0070062	cellular_component	extracellular exosome
G	0070936	biological_process	protein K48-linked ubiquitination
I	0008270	molecular_function	zinc ion binding
I	0061630	molecular_function	ubiquitin protein ligase activity
J	0000166	molecular_function	nucleotide binding
J	0000209	biological_process	protein polyubiquitination
J	0004842	molecular_function	ubiquitin-protein transferase activity
J	0005515	molecular_function	protein binding
J	0005524	molecular_function	ATP binding
J	0005634	cellular_component	nucleus
J	0005654	cellular_component	nucleoplasm
J	0005829	cellular_component	cytosol
J	0006511	biological_process	ubiquitin-dependent protein catabolic process
J	0016567	biological_process	protein ubiquitination
J	0016740	molecular_function	transferase activity
J	0032991	cellular_component	protein-containing complex
J	0036211	biological_process	protein modification process
J	0051865	biological_process	protein autoubiquitination
J	0061630	molecular_function	ubiquitin protein ligase activity
J	0061631	molecular_function	ubiquitin conjugating enzyme activity
J	0070062	cellular_component	extracellular exosome
J	0070936	biological_process	protein K48-linked ubiquitination
L	0008270	molecular_function	zinc ion binding
L	0061630	molecular_function	ubiquitin protein ligase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN C 401

Chain	Residue
C	CYS312
C	HIS314
C	CYS331
C	CYS334

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN C 402

Chain	Residue
C	CYS294
C	CYS297
C	HIS317
C	CYS320

site_id	AC3
Number of Residues	4
Details	binding site for residue ZN F 401

Chain	Residue
F	HIS314
F	CYS331
F	CYS334
F	CYS312

site_id	AC4
Number of Residues	4
Details	binding site for residue ZN F 402

Chain	Residue
F	CYS294
F	CYS297
F	HIS317
F	CYS320

site_id	AC5
Number of Residues	4
Details	binding site for residue ZN I 401

Chain	Residue
I	CYS312
I	HIS314
I	CYS331
I	CYS334

site_id	AC6
Number of Residues	4
Details	binding site for residue ZN I 402

Chain	Residue
I	CYS294
I	CYS297
I	HIS317
I	CYS320

site_id	AC7
Number of Residues	4
Details	binding site for residue ZN L 401

Chain	Residue
L	CYS312
L	HIS314
L	CYS331
L	CYS334

site_id	AC8
Number of Residues	4
Details	binding site for residue ZN L 402

Chain	Residue
L	CYS294
L	CYS297
L	HIS317
L	CYS320

Functional Information from PROSITE/UniProt

site_id	PS00299
Number of Residues	26
Details	UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD

Chain	Residue	Details
B	LYS27-ASP52

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	584
Details	Domain: {"description":"UBC core","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Active site: {"description":"Glycyl thioester intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"},{"source":"PROSITE-ProRule","id":"PRU10133","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	164
Details	Zinc finger: {"description":"RING-type; atypical","evidences":[{"source":"PROSITE-ProRule","id":"PRU00175","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	24
Details	Region: {"description":"Ubiquitin binding","evidences":[{"source":"PubMed","id":"26656854","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5D0K","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"PubMed","id":"26656854","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5D0I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5D0K","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5D0M","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	300
Details	Domain: {"description":"Ubiquitin-like 3","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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