5VSO | pdb_00005vso

NMR structure of Ydj1 J-domain, a cytosolic Hsp40 from Saccharomyces cerevisiae

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
A	d5vsoa1	All alpha proteins	Long alpha-hairpin	Chaperone J-domain	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
A	d5vsoa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Chaperone J-domain	8073770	4000605	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Chaperone J-domain	8073771	3000721	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	DnaJ	e5vsoA1	A: alpha bundles	X: Chaperone J-domain (From Topology)	H: Chaperone J-domain (From Topology)	T: Chaperone J-domain	F: DnaJ	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00226	DnaJ domain (DnaJ)	DnaJ domain	DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction. DnaJ-domain is therefore part of a chaperone (protein folding) system. The T-antigens, although not in Prosite are conf ...	DnaJ domains (J-domains) are associated with hsp70 heat-shock system and it is thought that this domain mediates the interaction. DnaJ-domain is therefore part of a chaperone (protein folding) system. The T-antigens, although not in Prosite are confirmed as DnaJ containing domains from literature [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Yeast dnaJ protein 1	ATPase activator activity molecular function activator activity molecular function regulator activity ATPase regulator activity protein binding binding Hsp70 protein binding protein-folding chaperone binding heat shock protein binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ATPase activator activity molecular function activator activity molecular function regulator activity ATPase regulator activity protein binding binding Hsp70 protein binding protein-folding chaperone binding heat shock protein binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding unfolded protein binding cation binding transition metal ion binding zinc ion binding metal ion binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process protein refolding protein maturation protein folding protein metabolic process localization establishment of protein localization establishment of protein localization to organelle protein targeting protein targeting to mitochondrion establishment of protein localization to mitochondrion establishment of localization cellular component organization cellular component biogenesis cellular component assembly chaperone-mediated protein complex assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus catabolic process response to stimulus proteolysis involved in protein catabolic process response to nitrogen compound proteasomal protein catabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress proteolysis response to endoplasmic reticulum stress cellular response to heat response to heat response to abiotic stimulus response to temperature stimulus nitrogen compound transport protein transport transport macromolecule localization intracellular protein localization response to oxygen levels establishment of protein localization to endoplasmic reticulum protein targeting to ER cellular response to nutrient levels response to nutrient levels response to starvation cellular response to starvation modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process 'de novo' protein folding cellular localization RNA import into nucleus RNA transport nucleocytoplasmic transport nuclear transport nucleic acid transport tRNA import into nucleus intracellular transport import into nucleus tRNA transport establishment of RNA localization establishment of localization in cell RNA localization nucleobase-containing compound transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex TRC complex ER membrane insertion complex perinuclear region of cytoplasm transcription regulator complex transcription repressor complex membrane-bounded organelle intracellular organelle organelle nucleus cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex TRC complex ER membrane insertion complex perinuclear region of cytoplasm transcription regulator complex transcription repressor complex membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044713	DnaJ homolog subfamily A member 1/2-like	Family
A	IPR001305	Heat shock protein DnaJ, cysteine-rich domain	Domain
A	IPR001623	DnaJ domain	Domain
A	IPR012724	Chaperone DnaJ	Family
A	IPR018253	DnaJ domain, conserved site	Conserved Site
A	IPR002939	Chaperone DnaJ, C-terminal	Domain
A	IPR036869	Chaperone J-domain superfamily	Homologous Superfamily
A	IPR008971	HSP40/DnaJ peptide-binding	Homologous Superfamily
A	IPR036410	Heat shock protein DnaJ, cysteine-rich domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.