1UEL

Solution structure of ubiquitin-like domain of hHR23B complexed with ubiquitin-interacting motif of proteasome subunit S5a

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1uela1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	Ubiquitin-related	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1uela2	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1uelb1	Peptides	Ubiquitin interacting motif (UIM)	Ubiquitin interacting motif (UIM)	Ubiquitin interacting motif (UIM)	26s proteasome non-ATPase regulatory subunit 4 (s5a)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1uelb2	Artifacts	Tags	Tags	Tags	N-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)
A	SCOP2 Family	Ubiquitin-related	8029360	4000962	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ubiquitin-like	8041739	3000157	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	ubiquitin_2	e1uelA1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: ubiquitin_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
B	6.10.300.40	Special	Helix non-globular	cAMP-dependent Protein Kinase, Chain A		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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
B	PF02809	Ubiquitin interaction motif (UIM)	Ubiquitin interaction motif	-	Motif

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	UV excision repair protein RAD23 homolog B	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding organic cyclic compound binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding organic cyclic compound binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding ubiquitin binding ubiquitin-like protein binding damaged DNA binding polyubiquitin modification-dependent protein binding modification-dependent protein binding DNA damage sensor activity small molecule sensor activity protein-containing complex binding proteasome binding single-stranded DNA binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process proteasomal protein catabolic process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process multicellular organism development multicellular organismal process anatomical structure development animal organ development embryonic organ development embryo development regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process regulation of proteolysis involved in protein catabolic process regulation of proteolysis regulation of biological process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process regulation of proteasomal protein catabolic process regulation of metabolic process regulation of protein catabolic process cellular response to stimulus response to stimulus DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress cellular process DNA repair response to organic substance response to cytokine response to interleukin-7 cellular response to chemical stimulus response to chemical cellular response to cytokine stimulus cellular response to interleukin-7 cellular response to organic substance	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex XPC complex nuclear protein-containing complex nucleotide-excision repair complex
B	26S proteasome non-ATPase regulatory subunit 4	polyubiquitin modification-dependent protein binding protein binding binding modification-dependent protein binding molecular adaptor activity RNA binding organic cyclic compound binding nucleic acid binding identical protein binding	organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process	proteasome accessory complex protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome complex endopeptidase complex cellular anatomical entity intracellular protein-containing complex proteasome regulatory particle proteasome regulatory particle, base subcomplex cytoplasm cytosol membrane-bounded organelle proteasome accessory complex protein-containing complex intracellular anatomical structure catalytic complex peptidase complex proteasome complex endopeptidase complex cellular anatomical entity intracellular protein-containing complex proteasome regulatory particle proteasome regulatory particle, base subcomplex cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR004806	UV excision repair protein Rad23	Family
A	IPR036353	XPC-binding domain superfamily	Homologous Superfamily
A	IPR015360	XPC-binding domain	Domain
A	IPR015940	Ubiquitin-associated domain	Domain
A	IPR041811	RAD23A/RAD23B, UBA1 domain	Domain
A	IPR000626	Ubiquitin-like domain	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR009060	UBA-like superfamily	Homologous Superfamily
A	IPR006636	Heat shock chaperonin-binding	Domain
B	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B	IPR002035	von Willebrand factor, type A	Domain
B	IPR003903	Ubiquitin interacting motif	Conserved Site
B	IPR049590	PSMD4, RAZUL domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P54727	Craniofacial Abnormalities male infertility prostate cancer tuberculosis atrial fibrillation interstitial lung disease lymphoplasmacytic lymphoma medulloblastoma plasma cell myeloma xeroderma pigmentosum breast cancer dermatomyositis lung adenocarcinoma osteosarcoma Cockayne syndrome Craniofacial Abnormalities male infertility prostate cancer tuberculosis atrial fibrillation interstitial lung disease lymphoplasmacytic lymphoma medulloblastoma plasma cell myeloma xeroderma pigmentosum breast cancer dermatomyositis lung adenocarcinoma osteosarcoma Cockayne syndrome hereditary spastic paraplegia lung cancer ovarian cancer prostate carcinoma
B	Pharos: P55036	heart disease ovarian cancer lung cancer plasma cell myeloma myocardial infarction

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.