2BWE | pdb_00002bwe

The crystal structure of the complex between the UBA and UBL domains of Dsk2

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)
U	d2bweu_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	automated matches	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
T	d2bwet_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	automated matches	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
S	d2bwes1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	DSK2	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
M	d2bwem_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
R	d2bwer_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
Q	d2bweq_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
P	d2bwep_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
O	d2bweo_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
N	d2bwen_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
L	d2bwel_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
K	d2bwek_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
J	d2bwej_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
I	d2bwei_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
H	d2bweh_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
G	d2bweg_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
F	d2bwef_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
E	d2bwee_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D	d2bwed_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
C	d2bwec_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d2bweb_	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	automated matches	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
A	d2bwea1	All alpha proteins	RuvA C-terminal domain-like	UBA-like	UBA domain	DSK2	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
U	SCOP2B Superfamily	Ubiquitin-like	8038778	3000157	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	Ubiquitin-like	8038778	3000157	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Ubiquitin-like	8038778	3000157	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	UBA-like	8038739	3001235	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	UBA-like	8038739	3001235	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)
U	S4	e2bweU1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: S4	ECOD (v294.1)
T	S4	e2bweT1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: S4	ECOD (v294.1)
S	S4	e2bweS1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: S4	ECOD (v294.1)
M	UBA	e2bweM1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
R	UBA	e2bweR1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
Q	UBA	e2bweQ1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
P	UBA	e2bweP1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
O	UBA	e2bweO1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
N	UBA	e2bweN1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
L	UBA	e2bweL1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
K	UBA	e2bweK1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
J	UBA	e2bweJ1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
I	UBA	e2bweI1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
H	UBA	e2bweH1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
G	UBA	e2bweG1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
F	UBA	e2bweF1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
E	UBA	e2bweE1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
D	UBA	e2bweD1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
C	UBA	e2bweC1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
B	UBA	e2bweB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)
A	UBA	e2bweA1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: UBA	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
U	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
T	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
S	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
M	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
R	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
Q	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
P	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
O	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
N	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
L	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
K	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
J	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
I	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
H	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
G	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
F	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
E	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
S, T, U	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
S, T, U	DSK2	polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding protein-macromolecule adaptor activity molecular adaptor activity	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular response to stimulus response to stimulus proteasomal protein catabolic process ERAD pathway cellular response to stress response to chemical response to stress response to endoplasmic reticulum stress spindle pole body duplication microtubule organizing center organization microtubule cytoskeleton organization cellular component organization cellular component biogenesis organelle organization cellular component assembly spindle pole body organization microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization cell cycle process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	DSK2	polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding protein-macromolecule adaptor activity molecular adaptor activity	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process cellular response to stimulus response to stimulus proteasomal protein catabolic process ERAD pathway cellular response to stress response to chemical response to stress response to endoplasmic reticulum stress spindle pole body duplication microtubule organizing center organization microtubule cytoskeleton organization cellular component organization cellular component biogenesis organelle organization cellular component assembly spindle pole body organization microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization cell cycle process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
S, T, U	IPR019954	Ubiquitin conserved site	Conserved Site
S, T, U	IPR000626	Ubiquitin-like domain	Domain
S, T, U	IPR015496	Ubiquilin	Family
S, T, U	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
S, T, U	IPR009060	UBA-like superfamily	Homologous Superfamily
S, T, U	IPR015940	Ubiquitin-associated domain	Domain
S, T, U	IPR006636	Heat shock chaperonin-binding	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR019954	Ubiquitin conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR000626	Ubiquitin-like domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR015496	Ubiquilin	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR009060	UBA-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR015940	Ubiquitin-associated domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	IPR006636	Heat shock chaperonin-binding	Domain