6W9R | pdb_00006w9r

Crystal structure of an OTU deubiquitinase from Wolbachia pipientis wMel bound to ubiquitin

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
L [auth X]	d6w9rx1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
L [auth X]	d6w9rx2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K [auth W]	d6w9rw1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K [auth W]	d6w9rw2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J [auth V]	d6w9rv1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J [auth V]	d6w9rv2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth U]	d6w9ru1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth U]	d6w9ru2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth T]	d6w9rt1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth T]	d6w9rt2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth S]	d6w9rs1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth S]	d6w9rs2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth R]	d6w9rr1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth R]	d6w9rr2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth Q]	d6w9rq1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth Q]	d6w9rq2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth P]	d6w9rp1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth P]	d6w9rp2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth O]	d6w9ro1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth O]	d6w9ro2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth N]	d6w9rn1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth N]	d6w9rn2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A [auth M]	d6w9rm1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A [auth M]	d6w9rm2	Artifacts	Tags	Tags	Tags	C-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth X]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
K [auth W]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
J [auth V]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
I [auth U]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
H [auth T]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
G [auth S]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
F [auth R]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
E [auth Q]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
D [auth P]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
C [auth O]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
B [auth N]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)
A [auth M]	SCOP2B Superfamily	Ubiquitin-like	8097772	3000157	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
X [auth L]	SBP_bac_1	e6w9rL1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
W [auth K]		e6w9rK1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
V [auth J]	SBP_bac_1	e6w9rJ1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
U [auth I]		e6w9rI1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
T [auth H]	SBP_bac_1	e6w9rH1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
S [auth G]		e6w9rG1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
R [auth F]		e6w9rF1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
Q [auth E]	SBP_bac_1	e6w9rE1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
P [auth D]		e6w9rD1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
O [auth C]	SBP_bac_1	e6w9rC1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
N [auth B]	SBP_bac_1	e6w9rB1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
M [auth A]	SBP_bac_1	e6w9rA1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
L [auth X]	SBP_bac_1	e6w9rX1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
K [auth W]	SBP_bac_1	e6w9rW1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
J [auth V]	SBP_bac_1	e6w9rV1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
I [auth U]	SBP_bac_1	e6w9rU1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
H [auth T]	SBP_bac_1	e6w9rT1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
G [auth S]	SBP_bac_1	e6w9rS1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
F [auth R]	SBP_bac_1	e6w9rR1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
E [auth Q]	SBP_bac_1	e6w9rQ1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
D [auth P]	SBP_bac_1	e6w9rP1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
C [auth O]	SBP_bac_1	e6w9rO1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
B [auth N]	SBP_bac_1	e6w9rN1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)
A [auth M]	SBP_bac_1	e6w9rM1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: SBP_bac_1	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
X [auth L]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
W [auth K]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
V [auth J]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
U [auth I]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
T [auth H]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
S [auth G]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
R [auth F]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
Q [auth E]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
P [auth D]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
O [auth C]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
N [auth B]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
M [auth A]	3.90.70.80	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
L [auth X]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
K [auth W]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
J [auth V]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
I [auth U]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
H [auth T]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
G [auth S]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
F [auth R]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
E [auth Q]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
D [auth P]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
C [auth O]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
B [auth N]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)
A [auth M]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	OTU domain-containing protein wMelOTU	-	-	-
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	Ubiquitin	-	-	membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion membrane organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane cytoplasm organelle membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR003323	OTU domain	Domain
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	IPR019956	Ubiquitin domain	Domain
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	IPR019954	Ubiquitin conserved site	Conserved Site
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	IPR050158	Ubiquitin and ubiquitin-like	Family
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], A [auth M], B [auth N], C [auth O], D [auth P], E [auth Q], F [auth R], G [auth S], H [auth T], I [auth U], J [auth V], K [auth W], L [auth X]	IPR000626	Ubiquitin-like domain	Domain