Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6SQR

Crystal structure of Cat MDM2-S429E RING domain bound to UbcH5B-Ub

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005634	cellular_component	nucleus
A	0042802	molecular_function	identical protein binding
A	0043066	biological_process	negative regulation of apoptotic process
A	0051726	biological_process	regulation of cell cycle
A	0061630	molecular_function	ubiquitin protein ligase activity
B	0000151	cellular_component	ubiquitin ligase complex
B	0000209	biological_process	protein polyubiquitination
B	0004842	molecular_function	ubiquitin-protein transferase activity
B	0005515	molecular_function	protein binding
B	0005524	molecular_function	ATP binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005829	cellular_component	cytosol
B	0006511	biological_process	ubiquitin-dependent protein catabolic process
B	0016567	biological_process	protein ubiquitination
B	0016740	molecular_function	transferase activity
B	0019787	molecular_function	ubiquitin-like protein transferase activity
B	0031371	cellular_component	ubiquitin conjugating enzyme complex
B	0031625	molecular_function	ubiquitin protein ligase binding
B	0032991	cellular_component	protein-containing complex
B	0036211	biological_process	protein modification process
B	0051865	biological_process	protein autoubiquitination
B	0061630	molecular_function	ubiquitin protein ligase activity
B	0061631	molecular_function	ubiquitin conjugating enzyme activity
B	0070062	cellular_component	extracellular exosome
B	0070936	biological_process	protein K48-linked ubiquitination
D	0005634	cellular_component	nucleus
D	0042802	molecular_function	identical protein binding
D	0043066	biological_process	negative regulation of apoptotic process
D	0051726	biological_process	regulation of cell cycle
D	0061630	molecular_function	ubiquitin protein ligase activity
E	0000151	cellular_component	ubiquitin ligase complex
E	0000209	biological_process	protein polyubiquitination
E	0004842	molecular_function	ubiquitin-protein transferase activity
E	0005515	molecular_function	protein binding
E	0005524	molecular_function	ATP binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005829	cellular_component	cytosol
E	0006511	biological_process	ubiquitin-dependent protein catabolic process
E	0016567	biological_process	protein ubiquitination
E	0016740	molecular_function	transferase activity
E	0019787	molecular_function	ubiquitin-like protein transferase activity
E	0031371	cellular_component	ubiquitin conjugating enzyme complex
E	0031625	molecular_function	ubiquitin protein ligase binding
E	0032991	cellular_component	protein-containing complex
E	0036211	biological_process	protein modification process
E	0051865	biological_process	protein autoubiquitination
E	0061630	molecular_function	ubiquitin protein ligase activity
E	0061631	molecular_function	ubiquitin conjugating enzyme activity
E	0070062	cellular_component	extracellular exosome
E	0070936	biological_process	protein K48-linked ubiquitination
G	0005634	cellular_component	nucleus
G	0042802	molecular_function	identical protein binding
G	0043066	biological_process	negative regulation of apoptotic process
G	0051726	biological_process	regulation of cell cycle
G	0061630	molecular_function	ubiquitin protein ligase activity
H	0000151	cellular_component	ubiquitin ligase complex
H	0000209	biological_process	protein polyubiquitination
H	0004842	molecular_function	ubiquitin-protein transferase activity
H	0005515	molecular_function	protein binding
H	0005524	molecular_function	ATP binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005829	cellular_component	cytosol
H	0006511	biological_process	ubiquitin-dependent protein catabolic process
H	0016567	biological_process	protein ubiquitination
H	0016740	molecular_function	transferase activity
H	0019787	molecular_function	ubiquitin-like protein transferase activity
H	0031371	cellular_component	ubiquitin conjugating enzyme complex
H	0031625	molecular_function	ubiquitin protein ligase binding
H	0032991	cellular_component	protein-containing complex
H	0036211	biological_process	protein modification process
H	0051865	biological_process	protein autoubiquitination
H	0061630	molecular_function	ubiquitin protein ligase activity
H	0061631	molecular_function	ubiquitin conjugating enzyme activity
H	0070062	cellular_component	extracellular exosome
H	0070936	biological_process	protein K48-linked ubiquitination
J	0005634	cellular_component	nucleus
J	0042802	molecular_function	identical protein binding
J	0043066	biological_process	negative regulation of apoptotic process
J	0051726	biological_process	regulation of cell cycle
J	0061630	molecular_function	ubiquitin protein ligase activity
K	0000151	cellular_component	ubiquitin ligase complex
K	0000209	biological_process	protein polyubiquitination
K	0004842	molecular_function	ubiquitin-protein transferase activity
K	0005515	molecular_function	protein binding
K	0005524	molecular_function	ATP binding
K	0005634	cellular_component	nucleus
K	0005654	cellular_component	nucleoplasm
K	0005829	cellular_component	cytosol
K	0006511	biological_process	ubiquitin-dependent protein catabolic process
K	0016567	biological_process	protein ubiquitination
K	0016740	molecular_function	transferase activity
K	0019787	molecular_function	ubiquitin-like protein transferase activity
K	0031371	cellular_component	ubiquitin conjugating enzyme complex
K	0031625	molecular_function	ubiquitin protein ligase binding
K	0032991	cellular_component	protein-containing complex
K	0036211	biological_process	protein modification process
K	0051865	biological_process	protein autoubiquitination
K	0061630	molecular_function	ubiquitin protein ligase activity
K	0061631	molecular_function	ubiquitin conjugating enzyme activity
K	0070062	cellular_component	extracellular exosome
K	0070936	biological_process	protein K48-linked ubiquitination

Functional Information from PDB Data

site_id	AC1
Number of Residues	7
Details	binding site for residue EDO A 501

Chain	Residue
A	ASN433
A	GLU436
A	VAL439
A	LYS446
A	HOH617
C	THR9
D	PRO491

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN A 502

Chain	Residue
A	CYS461
A	CYS464
A	CYS438
A	CYS441

site_id	AC3
Number of Residues	4
Details	binding site for residue ZN A 503

Chain	Residue
A	HIS452
A	HIS457
A	CYS475
A	CYS478

site_id	AC4
Number of Residues	4
Details	binding site for residue EDO B 201

Chain	Residue
A	HOH605
B	ALA96
B	THR98
C	THR9

site_id	AC5
Number of Residues	7
Details	binding site for residue EDO D 501

Chain	Residue
B	ALA19
B	GLN20
B	HOH313
D	LYS469
D	ASN472
D	LYS473
D	ILE482

site_id	AC6
Number of Residues	4
Details	binding site for residue EDO D 502

Chain	Residue
C	ALA46
C	HOH108
D	ASN472
D	HOH617

site_id	AC7
Number of Residues	1
Details	binding site for residue NO3 D 503

Chain	Residue
D	ARG444

site_id	AC8
Number of Residues	4
Details	binding site for residue ZN D 504

Chain	Residue
D	CYS438
D	CYS441
D	CYS461
D	CYS464

site_id	AC9
Number of Residues	4
Details	binding site for residue ZN D 505

Chain	Residue
D	HIS452
D	HIS457
D	CYS475
D	CYS478

site_id	AD1
Number of Residues	5
Details	binding site for residue EDO G 501

Chain	Residue
G	ASN433
G	GLU436
G	LYS446
I	THR9
J	PRO491

site_id	AD2
Number of Residues	4
Details	binding site for residue EDO G 502

Chain	Residue
G	ASN447
G	LEU487
G	THR488
G	TYR489

site_id	AD3
Number of Residues	4
Details	binding site for residue ZN G 503

Chain	Residue
G	CYS438
G	CYS441
G	CYS461
G	CYS464

site_id	AD4
Number of Residues	4
Details	binding site for residue ZN G 504

Chain	Residue
G	HIS452
G	HIS457
G	CYS475
G	CYS478

site_id	AD5
Number of Residues	5
Details	binding site for residue NO3 H 201

Chain	Residue
G	VAL439
H	ARG5
H	ALA96
H	THR98
I	THR9

site_id	AD6
Number of Residues	7
Details	binding site for residue EDO I 101

Chain	Residue
H	GLN20
H	LEU104
I	PHE45
I	ALA46
I	GLY47
I	HIS68
I	HOH207

site_id	AD7
Number of Residues	5
Details	binding site for residue NO3 I 102

Chain	Residue
I	LYS27
I	GLN49
I	LEU50
I	GLU51
I	ASP52

site_id	AD8
Number of Residues	4
Details	binding site for residue EDO J 501

Chain	Residue
I	GLU34
J	TYR489
J	PHE490
J	HOH602

site_id	AD9
Number of Residues	6
Details	binding site for residue EDO J 502

Chain	Residue
G	PRO491
J	ASN433
J	GLU436
J	LYS446
J	HOH604
L	THR9

site_id	AE1
Number of Residues	5
Details	binding site for residue ZN J 503

Chain	Residue
J	CYS438
J	CYS441
J	ARG444
J	CYS461
J	CYS464

site_id	AE2
Number of Residues	4
Details	binding site for residue ZN J 504

Chain	Residue
J	HIS452
J	HIS457
J	CYS475
J	CYS478

site_id	AE3
Number of Residues	8
Details	binding site for residue EDO K 201

Chain	Residue
K	HOH316
K	PHE69
K	THR70
K	THR71
K	ARG72
K	SER80
K	ASN81
K	GLY82

site_id	AE4
Number of Residues	4
Details	binding site for residue EDO K 202

Chain	Residue
G	HIS452
G	GLY453
G	GLN480
K	PHE51

site_id	AE5
Number of Residues	5
Details	binding site for residue EDO K 203

Chain	Residue
J	HOH612
K	ALA96
K	THR98
L	LEU8
L	THR9

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
C	LYS27-ASP52
I	LYS27-ASP52

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	6
Details	SITE: Interacts with activating enzyme

Chain	Residue	Details
C	ARG54
C	ARG72
F	ARG54
F	ARG72
L	ARG54
L	ARG72

site_id	SWS_FT_FI2
Number of Residues	3
Details	SITE: Essential for function

Chain	Residue	Details
C	HIS68
F	HIS68
L	HIS68

site_id	SWS_FT_FI3
Number of Residues	3
Details	MOD_RES: Phosphoserine; by PINK1 => ECO:0000269\|PubMed:24660806, ECO:0000269\|PubMed:24751536, ECO:0000269\|PubMed:24784582, ECO:0000269\|PubMed:25527291

Chain	Residue	Details
C	SER65
F	SER65
L	SER65

site_id	SWS_FT_FI4
Number of Residues	3
Details	MOD_RES: (Microbial infection) ADP-ribosylthreonine => ECO:0000269\|PubMed:32330457

Chain	Residue	Details
C	THR66
F	THR66
L	THR66

site_id	SWS_FT_FI5
Number of Residues	3
Details	MOD_RES: ADP-ribosylglycine => ECO:0000269\|PubMed:28525742

Chain	Residue	Details
C	GLY76
F	GLY76
L	GLY76

site_id	SWS_FT_FI6
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:16443603

Chain	Residue	Details
C	LYS6
F	LYS6
L	LYS6

site_id	SWS_FT_FI7
Number of Residues	6
Details	CROSSLNK: Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)

Chain	Residue	Details
C	GLY76
F	GLY76
L	GLY76

site_id	SWS_FT_FI8
Number of Residues	6
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:16443603, ECO:0000269\|PubMed:16543144

Chain	Residue	Details
C	LYS11
C	LYS48
F	LYS11
F	LYS48
L	LYS11
L	LYS48

site_id	SWS_FT_FI9
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305\|PubMed:15466860

Chain	Residue	Details
C	LYS27
F	LYS27
L	LYS27

site_id	SWS_FT_FI10
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:16543144, ECO:0000269\|PubMed:25752573, ECO:0000269\|PubMed:25752577, ECO:0000269\|PubMed:34239127

Chain	Residue	Details
C	LYS29
F	LYS29
L	LYS29

site_id	SWS_FT_FI11
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:25752577

Chain	Residue	Details
C	LYS33
F	LYS33
L	LYS33

site_id	SWS_FT_FI12
Number of Residues	3
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:16543144, ECO:0000269\|PubMed:18719106

Chain	Residue	Details
C	LYS63
F	LYS63
L	LYS63

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