9QT9 | pdb_00009qt9

Cryo-EM structure of the core of the Arabidopsis thaliana UBR4/DI19/CALM1 complex

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth B]	PF24079	E3 ubiquitin-protein ligase UBR4-like domain (UBR4)	E3 ubiquitin-protein ligase UBR4-like domain	This domain is found in human E3 ubiquitin-protein ligase UBR4 and similar proteins mainly found in eukaryotes. UBR4 is a component of the N-end rule pathway. It recognizes and binds to proteins bearing specific N-terminal residues that are destabili ...	This domain is found in human E3 ubiquitin-protein ligase UBR4 and similar proteins mainly found in eukaryotes. UBR4 is a component of the N-end rule pathway. It recognizes and binds to proteins bearing specific N-terminal residues that are destabilising	Domain
B [auth E], E [auth F]	PF13499	EF-hand domain pair (EF-hand_7)	EF-hand domain pair		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth B]	Auxin transport protein (BIG)	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	developmental process multicellular organismal process reproductive system development reproductive process shoot system morphogenesis developmental process involved in reproduction post-embryonic plant morphogenesis anatomical structure morphogenesis reproductive shoot system development multicellular organism development inflorescence morphogenesis anatomical structure development reproductive structure development shoot system development developmental process multicellular organismal process reproductive system development reproductive process shoot system morphogenesis developmental process involved in reproduction post-embryonic plant morphogenesis anatomical structure morphogenesis reproductive shoot system development multicellular organism development inflorescence morphogenesis anatomical structure development reproductive structure development shoot system development post-embryonic development inflorescence development system development response to light stimulus response to stimulus response to red or far red light photomorphogenesis response to radiation response to abiotic stimulus plant organ development root morphogenesis post-embryonic root morphogenesis post-embryonic plant organ morphogenesis plant organ morphogenesis post-embryonic root development lateral root morphogenesis anatomical structure formation involved in morphogenesis lateral root development post-embryonic plant organ development plant organ formation lateral root formation root development root system development response to auxin response to hormone response to endogenous stimulus response to chemical developmental growth unidimensional cell growth growth cellular process cell morphogenesis cell growth developmental growth involved in morphogenesis biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to fungus response to external biotic stimulus response to biotic stimulus auxin-activated signaling pathway cellular response to stimulus regulation of biological process regulation of cellular process signaling biological regulation hormone-mediated signaling pathway cellular response to auxin stimulus cell communication cellular response to endogenous stimulus cellular response to chemical stimulus signal transduction cellular response to hormone stimulus localization auxin polar transport transport regulation of hormone levels auxin transport hormone transport regulation of biological quality establishment of localization	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cell-cell junction symplast anchoring junction cell junction plasmodesma
B [auth E], E [auth F]	Calmodulin-1	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding enzyme regulator activity molecular function regulator activity	response to stimulus response to mechanical stimulus response to abiotic stimulus response to external stimulus detection of stimulus response to metal ion response to chemical detection of chemical stimulus detection of calcium ion response to calcium ion	cell periphery cellular anatomical structure plasma membrane membrane intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle plastid organelle intracellular membrane-bounded organelle nucleus
C, F [auth D]	Protein DEHYDRATION-INDUCED 19	DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity sequence-specific DNA binding DNA binding binding nucleic acid binding	response to acid chemical response to stimulus response to stress response to chemical response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process response to acid chemical response to stimulus response to stress response to chemical response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological 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 positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth B]	IPR043145	Zinc finger, ZZ-type superfamily	Homologous Superfamily
A, D [auth B]	IPR045189	E3 ubiquitin ligase UBR4-like	Family
A, D [auth B]	IPR016024	Armadillo-type fold	Homologous Superfamily
A, D [auth B]	IPR003126	Zinc finger, UBR-type	Domain
A, D [auth B]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, D [auth B]	IPR056530	E3 ubiquitin-protein ligase UBR4-like domain	Domain
A, D [auth B]	IPR025704	E3 ubiquitin ligase UBR4, C-terminal	Domain
A, D [auth B]	IPR011989	Armadillo-like helical	Homologous Superfamily
A, D [auth B]	IPR000433	Zinc finger, ZZ-type	Domain
B [auth E], E [auth F]	IPR050230	Calmodulin/Myosin light chain/Troponin C-like	Family
B [auth E], E [auth F]	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
B [auth E], E [auth F]	IPR002048	EF-hand domain	Domain
B [auth E], E [auth F]	IPR011992	EF-hand domain pair	Homologous Superfamily
C, F [auth D]	IPR008598	Di19, zinc-binding domain	Domain
C, F [auth D]	IPR027935	Di19, C-terminal	Domain
C, F [auth D]	IPR033347	Di19	Family

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.