3RV0 | pdb_00003rv0

Crystal structure of K. polysporus Dcr1 without the C-terminal dsRBD

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	TbpB_A	e3rv0D1	A: a/b three-layered sandwiches	X: Ribosomal protein L31e-like	H: Reductive activator for corrinoid/iron-sulfur protein second domain	T: Reductive activator for corrinoid/iron-sulfur protein second domain	F: TbpB_A	ECOD (v294.1)
C	Ribonuclease_3	e3rv0C1	A: a/b three-layered sandwiches	X: RNase III catalytic domain-like	H: RNase III catalytic domain-like	T: RNase III catalytic domain-like	F: Ribonuclease_3	ECOD (v294.1)
C	TbpB_A	e3rv0C2	A: a/b three-layered sandwiches	X: Ribosomal protein L31e-like	H: Reductive activator for corrinoid/iron-sulfur protein second domain	T: Reductive activator for corrinoid/iron-sulfur protein second domain	F: TbpB_A	ECOD (v294.1)
B	dsrm	e3rv0B2	A: a/b three-layered sandwiches	X: dsRBD-like	H: dsRNA-binding domain-like	T: dsRNA-binding domain-like	F: dsrm	ECOD (v294.1)
B	DUF5610	e3rv0B1	A: a/b three-layered sandwiches	X: Uncharacterized protein CV_1783	H: Uncharacterized protein CV_1783	T: Uncharacterized protein CV_1783	F: DUF5610	ECOD (v294.1)
A	dsrm	e3rv0A2	A: a/b three-layered sandwiches	X: dsRBD-like	H: dsRNA-binding domain-like	T: dsRNA-binding domain-like	F: dsrm	ECOD (v294.1)
A	DUF5610	e3rv0A1	A: a/b three-layered sandwiches	X: Uncharacterized protein CV_1783	H: Uncharacterized protein CV_1783	T: Uncharacterized protein CV_1783	F: DUF5610	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.1270.260	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
D	1.10.1520.10	Mainly Alpha	Orthogonal Bundle	Ribonuclease iii, N-terminal Endonuclease Domain	Chain A	CATH (4.3.0)
C	1.20.1270.260	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
C	1.10.1520.10	Mainly Alpha	Orthogonal Bundle	Ribonuclease iii, N-terminal Endonuclease Domain	Chain A	CATH (4.3.0)
B	1.20.1270.260	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
B	1.10.1520.10	Mainly Alpha	Orthogonal Bundle	Ribonuclease iii, N-terminal Endonuclease Domain	Chain A	CATH (4.3.0)
B	3.30.160.20	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)
A	1.20.1270.260	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
A	1.10.1520.10	Mainly Alpha	Orthogonal Bundle	Ribonuclease iii, N-terminal Endonuclease Domain	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00636	Ribonuclease III domain (Ribonuclease_3)	Ribonuclease III domain	-	Family
A, B, C, D	PF20860	Dicers, N-terminal domain (Dicers_N)	Dicers, N-terminal domain	This domain is found at the N-terminal of hypothetical proteins from yeast that are thought to be the noncanonical Dicers found in these organisms. These proteins adopt a homodimer assembly similar to bacterial ribonuclease III but extended by a uniq ...	This domain is found at the N-terminal of hypothetical proteins from yeast that are thought to be the noncanonical Dicers found in these organisms. These proteins adopt a homodimer assembly similar to bacterial ribonuclease III but extended by a unique N-terminal domain that consists of five alpha-helices [1].	Domain
A, B, C, D	PF00035	Double-stranded RNA binding motif (dsrm)	Double-stranded RNA binding motif	Sequences gathered for seed by HMM_iterative_training Putative motif shared by proteins that bind to dsRNA. At least some DSRM proteins seem to bind to specific RNA targets. Exemplified by Staufen, which is involved in localisation of at least five d ...	Sequences gathered for seed by HMM_iterative_training Putative motif shared by proteins that bind to dsRNA. At least some DSRM proteins seem to bind to specific RNA targets. Exemplified by Staufen, which is involved in localisation of at least five different mRNAs in the early Drosophila embryo. Also by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	K. polysporus Dcr1	ribonuclease III activity double-stranded RNA-specific ribonuclease activity endonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity hydrolase activity, acting on ester bonds nuclease activity RNA endonuclease activity catalytic activity RNA binding binding ribonuclease III activity double-stranded RNA-specific ribonuclease activity endonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity hydrolase activity, acting on ester bonds nuclease activity RNA endonuclease activity catalytic activity RNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding identical protein binding protein binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription termination nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription termination nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process termination of RNA polymerase II transcription ribonucleoprotein complex biogenesis rRNA processing cellular component biogenesis ribosome biogenesis cellular component organization or biogenesis RNA processing rRNA metabolic process U4 snRNA 3'-end processing snRNA 3'-end processing snRNA metabolic process snRNA processing RNA 3'-end processing	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036389	Ribonuclease III, endonuclease domain superfamily	Homologous Superfamily
A, B, C, D	IPR048505	Dicers-like, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR048504	Dicers-like, N-terminal domain	Domain
A, B, C, D	IPR000999	Ribonuclease III domain	Domain
A, B, C, D	IPR014720	Double-stranded RNA-binding domain	Domain

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.