4WYQ | pdb_00004wyq

Crystal structure of the Dicer-TRBP interface

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E	Peptidase_M99_C	e4wyqE1	A: a/b three-layered sandwiches	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Peptidase_M99_C	ECOD (v294.1)
D	Peptidase_M99_C	e4wyqD1	A: a/b three-layered sandwiches	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Peptidase_M99_C	ECOD (v294.1)
A	U-box	e4wyqA1	A: a/b three-layered sandwiches	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: U-box	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.30.160.20	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)
B	3.30.160.20	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF20930	Dicer, partner-binding domain (Dicer_PBD)	Dicer, partner-binding domain	This domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04 ...	This domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04851 and Pfam:PF00271), a dimerisation domain (Pfam:PF03368), a Platform domain, a PAZ domain (Pfam:PF02170), two RNase III a/b domains (Pfam:PF00636) and a dsRNA-binding domain in its C-terminal region. This entry represents the partner-binding domain, which folds into a four-helix bundle. It is is responsible for the interactions with the dsRNA-binding proteins that support the enzymatic activity of Dicer [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, F	Poly(UNK)	-	-	-
B, E	RISC-loading complex subunit TARBP2	pre-mRNA binding RNA binding binding nucleic acid binding regulatory RNA binding siRNA binding double-stranded RNA binding molecular sequestering activity protein sequestering activity miRNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity pre-mRNA binding RNA binding binding nucleic acid binding regulatory RNA binding siRNA binding double-stranded RNA binding molecular sequestering activity protein sequestering activity miRNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity pre-miRNA binding enzyme binding	regulation of cellular process negative regulation of biological process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of cellular process negative regulation of biological process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process siRNA processing regulatory ncRNA processing regulatory ncRNA-mediated gene silencing regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process post-transcriptional regulation of gene expression global gene silencing by mRNA cleavage post-transcriptional gene silencing developmental process regulation of developmental process cellular developmental process positive regulation of biological process regulation of cell differentiation muscle cell differentiation positive regulation of muscle cell differentiation muscle structure development positive regulation of developmental process regulation of muscle cell differentiation positive regulation of cell differentiation cell differentiation anatomical structure development positive regulation of cellular process pre-miRNA processing miRNA processing regulation of primary metabolic process regulation of regulatory ncRNA processing regulation of gene silencing by regulatory ncRNA sexual reproduction reproductive process fertilization single fertilization regulation of miRNA processing positive regulation of protein metabolic process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process protein metabolic process regulation of protein metabolic process translation positive regulation of gene expression regulation of translation spermatid development spermatid differentiation spermatogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation male gamete generation germ cell development regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity negative regulation of kinase activity phosphate-containing compound metabolic process negative regulation of protein modification process phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation negative regulation of molecular function negative regulation of protein kinase activity regulation of protein kinase activity regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process negative regulation of phosphorylation cell population proliferation neural precursor cell proliferation ribonucleoprotein complex biogenesis RISC complex assembly protein-RNA complex assembly cellular component organization cellular component biogenesis protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization positive regulation of viral genome replication positive regulation of viral process viral life cycle regulation of viral life cycle regulation of viral process viral genome replication viral process regulation of viral genome replication viral gene expression regulation of viral transcription viral transcription regulation of siRNA processing tissue regeneration skeletal muscle tissue regeneration developmental growth growth regeneration cellular response to stimulus positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway response to stimulus regulation of signal transduction response to biotic stimulus intracellular signal transduction cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway immune response response to other organism regulation of innate immune response response to external stimulus regulation of response to stimulus defense response to other organism regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus intracellular receptor signaling pathway signaling negative regulation of signaling negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of cell communication positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of intracellular signal transduction regulation of response to stress response to stress innate immune response response to external biotic stimulus regulation of signaling positive regulation of innate immune response defense response negative regulation of response to stimulus defense response to symbiont negative regulation of signal transduction negative regulation of immune system process immune system process regulation of cell communication multicellular organism growth multicellular organismal process negative regulation of response to biotic stimulus regulation of defense response to virus regulation of defense response to virus by host response to virus negative regulation of defense response to virus by host defense response to virus negative regulation of response to external stimulus negative regulation of defense response negative regulation of defense response to virus	protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen RISC-loading complex endoribonuclease complex catalytic complex intracellular protein-containing complex endonuclease complex perinuclear region of cytoplasm intracellular membraneless organelle nuclear body membraneless organelle
A, D	Endoribonuclease Dicer	RNA binding double-stranded RNA binding binding nucleic acid 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 RNA binding double-stranded RNA binding binding nucleic acid 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 endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity ribonuclease III activity double-stranded RNA-specific ribonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism hydrolase activity hydrolase activity, acting on ester bonds cation binding metal ion binding nucleic acid conformation isomerase activity isomerase activity helicase activity macromolecular conformation isomerase activity ATP-dependent activity protein binding protein domain specific binding regulatory RNA binding siRNA binding DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity catalytic activity, acting on DNA DNA endonuclease activity, producing 5'-phosphomonoesters pre-miRNA binding	catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process tRNA metabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process tRNA decay RNA catabolic process catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process tRNA metabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process tRNA decay RNA catabolic process regulation of cellular process negative regulation of biological process RNA biosynthetic process nucleic acid biosynthetic process negative regulation of cellular process RNA processing negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process siRNA processing regulatory ncRNA processing regulatory ncRNA-mediated gene silencing regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process multicellular organismal process regulation of tumor necrosis factor production negative regulation of tumor necrosis factor production cytokine production regulation of cytokine production regulation of multicellular organismal process tumor necrosis factor superfamily cytokine production negative regulation of cytokine production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production negative regulation of tumor necrosis factor superfamily cytokine production negative regulation of multicellular organismal process post-transcriptional regulation of gene expression global gene silencing by mRNA cleavage post-transcriptional gene silencing cellular developmental process peripheral nervous system axon ensheathment cellular component assembly involved in morphogenesis cell development glial cell development myelin assembly cellular component organization cellular component biogenesis multicellular organism development neurogenesis cellular anatomical entity morphogenesis cellular component assembly gliogenesis axon ensheathment ensheathment of neurons cell differentiation anatomical structure development myelination in peripheral nervous system cellular component organization or biogenesis Schwann cell differentiation system development developmental process peripheral nervous system development nervous system development peripheral nervous system myelin formation myelination anatomical structure morphogenesis Schwann cell development glial cell differentiation anatomical structure formation involved in morphogenesis ribonucleoprotein complex biogenesis RISC complex assembly protein-RNA complex assembly protein-RNA complex organization protein-containing complex assembly protein-containing complex organization nerve development regulation of primary metabolic process negative regulation of RNA biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II regulation of DNA-templated transcription negative regulation of RNA metabolic process pre-miRNA processing miRNA processing miRNA metabolic process positive regulation of nervous system development regulation of developmental process positive regulation of biological process regulation of neurogenesis regulation of cell differentiation regulation of gliogenesis positive regulation of gliogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process positive regulation of cell differentiation positive regulation of neurogenesis positive regulation of cellular process regulation of multicellular organismal development positive regulation of Schwann cell differentiation positive regulation of cell development regulation of glial cell differentiation positive regulation of glial cell differentiation regulation of Schwann cell differentiation positive regulation of multicellular organismal process cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis plasma membrane bounded cell projection organization generation of neurons neuron development negative regulation of glial cell proliferation negative regulation of Schwann cell proliferation negative regulation of neurogenesis regulation of glial cell proliferation negative regulation of nervous system development negative regulation of cell differentiation Schwann cell proliferation negative regulation of cell population proliferation cell population proliferation regulation of Schwann cell proliferation negative regulation of developmental process negative regulation of gliogenesis negative regulation of cell development regulation of cell population proliferation glial cell proliferation system process regulation of myelination regulation of system process positive regulation of myelination positive regulation of nervous system process nervous system process regulation of nervous system process cellular component disassembly DNA metabolic process cell death execution phase of apoptosis apoptotic DNA fragmentation cellular component disassembly involved in execution phase of apoptosis DNA catabolic process apoptotic nuclear changes apoptotic process programmed cell death cellular response to stimulus response to stimulus negative regulation of signaling signaling response to cytokine regulation of signal transduction negative regulation of cell communication cytokine-mediated signaling pathway cell communication cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus signal transduction regulation of signaling cell surface receptor signaling pathway regulation of tumor necrosis factor-mediated signaling pathway negative regulation of response to stimulus regulation of cytokine-mediated signaling pathway negative regulation of tumor necrosis factor-mediated signaling pathway negative regulation of signal transduction response to peptide regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus regulation of response to stimulus negative regulation of cytokine-mediated signaling pathway response to chemical regulation of cell communication response to tumor necrosis factor	protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol perinuclear region of cytoplasm RISC-loading complex endoribonuclease complex catalytic complex intracellular protein-containing complex endonuclease complex intracellular organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, E	IPR044469	TRBP2 , first double-stranded RNA binding domain	Domain
B, E	IPR044470	TRBP2 , second double-stranded RNA binding domain	Domain
B, E	IPR051247	RISC Loading Complex Component	Family
B, E	IPR044471	TRBP2 , third double-stranded RNA binding domain	Domain
B, E	IPR014720	Double-stranded RNA-binding domain	Domain
B, E	IPR028605	RISC-loading complex subunit TRBP2	Family
A, D	IPR048513	Dicer, partner-binding domain	Domain
A, D	IPR044441	Dicer, double-stranded RNA-binding domain	Domain
A, D	IPR011545	DEAD/DEAH-box helicase domain	Domain
A, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, D	IPR001650	Helicase, C-terminal domain-like	Domain
A, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, D	IPR005034	Dicer, dimerisation domain	Domain
A, D	IPR038248	Dicer dimerisation domain superfamily	Homologous Superfamily
A, D	IPR000999	Ribonuclease III domain	Domain
A, D	IPR003100	PAZ domain	Domain
A, D	IPR048512	Dicer, platform domain	Domain
A, D	IPR036389	Ribonuclease III, endonuclease domain superfamily	Homologous Superfamily
A, D	IPR036085	PAZ domain superfamily	Homologous Superfamily
A, D	IPR014720	Double-stranded RNA-binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, E	Pharos: Q15633	Microsatellite Instability atypical teratoid rhabdoid tumor large cell medulloblastoma psoriasis malignant mesothelioma
A, D	Pharos: Q9UPY3	pleuropulmonary blastoma endometriosis Rhabdomyosarcoma, embryonal, 2 kidney Wilms tumor oligospermia cancer goiter, multinodular 1, with or without Sertoli-Leydig cell tumors hepatocellular carcinoma Sertoli cell tumor juvenile dermatomyositis thyroid gland carcinoma liver cancer multinodular goiter adrenal cortex carcinoma osteosarcoma pleuropulmonary blastoma endometriosis Rhabdomyosarcoma, embryonal, 2 kidney Wilms tumor oligospermia cancer goiter, multinodular 1, with or without Sertoli-Leydig cell tumors hepatocellular carcinoma Sertoli cell tumor juvenile dermatomyositis thyroid gland carcinoma liver cancer multinodular goiter adrenal cortex carcinoma osteosarcoma astrocytic tumor ovarian Sertoli-Leydig cell tumor pituitary gland adenoma Crohn disease primitive neuroectodermal tumor rhabdomyosarcoma Gaucher disease sarcoidosis hereditary spastic paraplegia Sertoli-Leydig cell tumor tuberculosis lymphoplasmacytic lymphoma malignant mesothelioma myopathy Alzheimer disease ovarian cancer atrial fibrillation pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia breast cancer plasma cell myeloma dermatomyositis progressive supranuclear palsy glioblastoma schizophrenia granulosa cell tumor IgA glomerulonephritis sex cord-stromal tumor large cell medulloblastoma ulcerative colitis medulloblastoma amyotrophic lateral sclerosis ovarian gynandroblastoma atypical teratoid rhabdoid tumor Pick disease psoriasis rheumatoid arthritis