6YGU

Crystal structure of the minimal Mtr4-Red1 complex (single chain) from Chaetomium thermophilum

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B	PF10650	e6yguB1	A: few secondary structure elements	X: CCCH zinc finger	H: CCCH zinc finger (From Topology)	T: CCCH zinc finger	F: PF10650	ECOD (1.6)
D	PF10650	e6yguD1	A: few secondary structure elements	X: CCCH zinc finger	H: CCCH zinc finger (From Topology)	T: CCCH zinc finger	F: PF10650	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF21408	Exosome RNA helicase MTR4-like, stalk (MTR4-like_stalk)	Exosome RNA helicase MTR4-like, stalk	Exosome RNA helicase MTR4 is a conserved RNA helicase that functions together with the nuclear exosome and it is involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involv ...	Exosome RNA helicase MTR4 is a conserved RNA helicase that functions together with the nuclear exosome and it is involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involving the so-called TRAMP complex [1,2]. It contains an arch domain, required for proper 5.8S rRNA processing, and appears to function independently of canonical helicase activity [3]. The arch domain comprises an helical stalk/elbow that flanks a KOW module which adopts a beta-barrel fold. This entry represents the helical stalk found at the N-terminal of KOW beta-barrel from MTR4 [1-3]. This entry also includes Ski2-like helicases which have an overall similar structure to MTR4 proteins. However, Ski2 from yeast does not have the KOW motif and the beta-barrel is tightly packed against the helical stalk [3].	Domain
A, C	PF13234	Mtr4-like, beta-barrel domain (MTR4_beta-barrel)	Mtr4-like, beta-barrel domain	Exosome RNA helicase Mtr4 is a essential RNA helicase, and is an exosome-activating cofactor. It functions together with the nuclear exosome being involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclea ...	Exosome RNA helicase Mtr4 is a essential RNA helicase, and is an exosome-activating cofactor. It functions together with the nuclear exosome being involved in processing of structured RNAs, including snRNAs and snoRNAs. It also plays a role in nuclear RNA surveillance pathways involving the so-called TRAMP complex [1,2,3]. It contains an arch domain, required for proper 5.8S rRNA processing, and appears to function independently of canonical helicase activity [3]. The arch domain comprises an helical stalk/elbow that flanks a KOW module which adopts a beta-barrel fold. Thsi entry represents the beta-barrel of MTR4 and related Ski2-like helicases. Ski2 from yeast has an overall similar structure to MTR4 proteins. However, it does not have the KOW motif [4] and it is not included in this entry.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	ATP dependent RNA helicase (Dob1)-like protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity catalytic activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity RNA binding nucleic acid binding	catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process nucleic acid catabolic process metabolic process macromolecule metabolic process organic substance catabolic process catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process nucleic acid catabolic process metabolic process macromolecule metabolic process organic substance catabolic process RNA catabolic process	-
B, D	Red1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR048392	Exosome RNA helicase MTR4-like, stalk	Domain
A, C	IPR012961	ATP-dependent RNA helicase Ski2/MTR4, C-terminal	Domain
A, C	IPR001650	Helicase, C-terminal domain-like	Domain
A, C	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, C	IPR025696	Exosome RNA helicase MTR4-like, beta-barrel domain	Domain
A, C	IPR016438	ATP-dependent RNA helicase SKI2-like	Family
A, C	IPR011545	DEAD/DEAH box helicase domain	Domain
A, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, D	IPR039278	NURS complex subunit red1	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 R01GM133198.