2CQA

Solution structure of RSGI RUH-039, a fragment of C-terminal domain of RuvB-like 2 from human cDNA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2cqaa1	All beta proteins	OB-fold	Nucleic acid-binding proteins	TIP49 domain	RuvB-like 2 protein, RUVBL2 (TIP49b)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2cqaa3	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2cqaa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	TIP49 domain	8026821	4001803	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nucleic acid-binding proteins	8039200	3000135	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF06068	e2cqaA1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF06068	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.360	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RuvBL1 DNA/RNA binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF06068	TIP49 P-loop domain (TIP49)	TIP49 P-loop domain	This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the Pfam:PF00004 domain. In zebrafish, the liebeskummer (lik) ...	This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the Pfam:PF00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway [1]. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RuvB-like 2	TFIID-class transcription factor complex binding transcription factor binding basal transcription machinery binding protein-containing complex binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding TFIID-class transcription factor complex binding transcription factor binding basal transcription machinery binding protein-containing complex binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor 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 ADP binding TBP-class protein binding DNA binding chromatin binding double-stranded DNA binding nucleic acid binding chromatin DNA binding molecular adaptor activity DNA-DNA tethering activity promoter-enhancer loop anchoring activity chromatin loop anchoring activity sequence-specific DNA binding core promoter sequence-specific DNA binding RNA polymerase II core promoter sequence-specific DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding ATPase binding enzyme binding identical protein binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity unfolded protein binding protein homodimerization activity protein dimerization activity 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 beta-catenin binding	RNA localization to nucleus regulation of localization regulation of biological process biological regulation positive regulation of biological process positive regulation of telomerase RNA localization to Cajal body telomerase RNA localization to Cajal body regulation of telomerase RNA localization to Cajal body localization telomerase RNA localization macromolecule localization RNA localization to Cajal body RNA localization regulation of protein stability RNA localization to nucleus regulation of localization regulation of biological process biological regulation positive regulation of biological process positive regulation of telomerase RNA localization to Cajal body telomerase RNA localization to Cajal body regulation of telomerase RNA localization to Cajal body localization telomerase RNA localization macromolecule localization RNA localization to Cajal body RNA localization regulation of protein stability regulation of biological quality protein stabilization organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process primary metabolic process gene expression macromolecule biosynthetic process protein maturation organic substance metabolic process protein folding biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process signal transduction Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death regulation of cellular response to stress positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair cellular response to stress response to stress regulation of response to stress positive regulation of macromolecule metabolic process positive regulation of cellular process DNA repair positive regulation of nucleobase-containing compound metabolic process regulation of DNA repair positive regulation of DNA metabolic process DNA damage response regulation of DNA recombination regulation of double-strand break repair positive regulation of double-strand break repair via homologous recombination recombinational repair double-strand break repair via homologous recombination positive regulation of DNA recombination double-strand break repair DNA recombination positive regulation of double-strand break repair regulation of double-strand break repair via homologous recombination RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of cellular metabolic process nucleobase-containing compound biosynthetic process regulation of cellular biosynthetic process regulation of gene expression organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription positive regulation of organelle organization telomere maintenance in response to DNA damage telomere organization positive regulation of telomere maintenance regulation of chromosome organization regulation of organelle organization positive regulation of chromosome organization telomere maintenance regulation of telomere maintenance regulation of cellular component organization positive regulation of cellular component organization cellular component organization cellular component organization or biogenesis positive regulation of telomere maintenance in response to DNA damage regulation of telomere maintenance in response to DNA damage chromosome organization organelle organization positive regulation of macromolecule biosynthetic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process ribonucleoprotein complex biogenesis protein-containing complex organization small nucleolar ribonucleoprotein complex assembly protein-RNA complex assembly cellular component biogenesis protein-RNA complex organization cellular component assembly protein-containing complex assembly box C/D snoRNP assembly response to light stimulus cellular response to radiation response to UV cellular response to environmental stimulus cellular response to light stimulus response to radiation response to abiotic stimulus cellular response to abiotic stimulus cellular response to UV response to organic substance response to lipid cellular response to organic cyclic compound response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical cellular response to lipid response to estradiol cellular response to estradiol stimulus cellular response to organic substance response to organic cyclic compound developmental process multicellular organismal process regulation of embryonic development regulation of multicellular organismal development regulation of developmental process embryo development multicellular organism development anatomical structure development regulation of multicellular organismal process cell cycle regulation of cell cycle regulation of DNA strand elongation DNA strand elongation protein localization establishment of protein localization cellular localization protein localization to chromatin establishment of protein localization to chromatin establishment of localization establishment of protein localization to organelle protein localization to chromosome cellular macromolecule localization protein localization to organelle establishment of protein localization to chromosome protein-DNA complex organization chromatin organization chromatin remodeling	membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle SWI/SNF superfamily-type complex non-membrane-bounded organelle INO80-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen intracellular organelle SWI/SNF superfamily-type complex non-membrane-bounded organelle INO80-type complex catalytic complex protein-DNA complex chromatin intracellular membrane-bounded organelle cellular anatomical entity Ino80 complex organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol dynein axonemal particle protein folding chaperone complex intracellular protein-containing complex histone methyltransferase complex MLL1/2 complex transferase complex MLL1 complex nucleoplasm methyltransferase complex RPAP3/R2TP/prefoldin-like complex nuclear periphery nuclear matrix NuA4 histone acetyltransferase complex H4/H2A histone acetyltransferase complex histone acetyltransferase complex acetyltransferase complex H4 histone acetyltransferase complex protein acetyltransferase complex centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton R2TP complex nucleosome histone deacetylase complex Swr1 complex euchromatin ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR010339	TIP49, P-loop domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR041048	RuvB-like, AAA-lid domain	Domain
A	IPR042487	RuvBL1/2, DNA/RNA binding domain	Homologous Superfamily
A	IPR003593	AAA+ ATPase domain	Domain
A	IPR027238	RuvB-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9Y230	diabetes mellitus osteosarcoma Sjogren syndrome lung cancer ovarian cancer malignant colon neoplasm plasma cell myeloma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.