4DB2 | pdb_00004db2

Mss116p DEAD-box helicase domain 2 bound to an RNA duplex

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		e4db2D2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
C		e4db2C2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
B		e4db2B1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: ABC_tran	F:	ECOD (20:10:01)
A		e4db2A1	A: Flavodoxin-like	X: SH3	H: SH3	T: adh_short_C2	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00271	Helicase conserved C-terminal domain (Helicase_C)	Helicase conserved C-terminal domain	The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H, I E, F, G, H, I, J	5'-R(GPGPGPCPGPGPGPCPCPCPGPCPCPC)-3'	-	-	-
A, B, C, D	ATP-dependent RNA helicase MSS116, mitochondrial	RNA binding binding nucleic acid binding DNA binding G-quadruplex DNA binding RNA strand annealing activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid single-stranded RNA binding annealing activity macromolecular conformation isomerase activity catalytic activity RNA binding binding nucleic acid binding DNA binding G-quadruplex DNA binding RNA strand annealing activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid single-stranded RNA binding annealing activity macromolecular conformation isomerase activity catalytic activity 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 mRNA binding G-quadruplex RNA binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides ATP-dependent activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process Group II intron splicing macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process RNA splicing, via transesterification reactions biosynthetic process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process Group II intron splicing macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process RNA splicing, via transesterification reactions biosynthetic process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile metabolic process cellular process RNA processing macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process translation protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process protein metabolic process regulation of metabolic process mRNA processing mRNA metabolic process mitochondrial translation mitochondrial translational initiation mitochondrial gene expression translational initiation RNA folding Group I intron splicing RNA splicing, via transesterification reactions with guanosine as nucleophile mitochondrial transcription DNA-templated transcription DNA-templated transcription elongation transcription elongation by mitochondrial RNA polymerase mitochondrial RNA metabolic process translational elongation mitochondrial translational elongation mitochondrial RNA processing	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial ribosome membrane-enclosed lumen intracellular membraneless organelle mitochondrial matrix intracellular organelle lumen organellar ribosome membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial ribosome membrane-enclosed lumen intracellular membraneless organelle mitochondrial matrix intracellular organelle lumen organellar ribosome organelle lumen membraneless organelle ribosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000629	ATP-dependent RNA helicase DEAD-box, conserved site	Conserved Site
A, B, C, D	IPR011545	DEAD/DEAH-box helicase domain	Domain
A, B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C, D	IPR014001	Helicase superfamily 1/2, ATP-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.