Annotations: 9SPE

Human tRNA ligase complex bound by PYROXD1

External Resource: Annotation

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
F [auth R]	PF01139	tRNA-splicing ligase RtcB (RtcB)	tRNA-splicing ligase RtcB	-	Family
E [auth P]	PF07992	Pyridine nucleotide-disulphide oxidoreductase (Pyr_redox_2)	Pyridine nucleotide-disulphide oxidoreductase	This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.	Domain
E [auth P]	PF18267	Rubredoxin NAD+ reductase C-terminal domain (Rubredoxin_C)	Rubredoxin NAD+ reductase C-terminal domain	This is the C-terminal domain of NADH rubredoxin oxidoreductase present in Clostridium acetobutylicum. The majority of obligatory anaerobes detoxify micro-aerobic environments by consuming O2 via H2O-forming NADH oxidase. This enzyme offers an altern ...	This is the C-terminal domain of NADH rubredoxin oxidoreductase present in Clostridium acetobutylicum. The majority of obligatory anaerobes detoxify micro-aerobic environments by consuming O2 via H2O-forming NADH oxidase. This enzyme offers an alternate reaction pathway for scavenging of O2 and reactive oxygen species, wherein the reducing equivalent is obtained from NADH [1].	Domain
C	PF10036	RNA transcription, translation and transport factor protein (RLL)	RNA transcription, translation and transport factor protein	-	Family
B	PF10239	Protein of unknown function (DUF2465) (DUF2465)	Protein of unknown function (DUF2465)	-	Family
A	PF15323	Developmental protein (Ashwin)	Developmental protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F [auth R]	RNA-splicing ligase RtcB homolog	cytoskeletal protein binding protein binding binding vinculin binding ligase activity, forming phosphoric ester bonds RNA ligase (GTP) activity catalytic activity, acting on RNA RNA ligase activity catalytic activity, acting on a nucleic acid catalytic activity ligase activity RNA binding nucleic acid binding	RNA splicing RNA metabolic process RNA exon ligation primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA exon ligation RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing RNA metabolic process RNA exon ligation primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA exon ligation RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing metabolic process cellular process RNA processing macromolecule metabolic process mRNA processing mRNA metabolic process mRNA splicing, via endonucleolytic cleavage and ligation cellular response to stimulus regulation of biological process cellular response to topologically incorrect protein regulation of cellular process response to stimulus signaling biological regulation endoplasmic reticulum unfolded protein response cellular response to unfolded protein response to unfolded protein intracellular signal transduction cell communication cellular response to stress response to stress response to topologically incorrect protein IRE1-mediated unfolded protein response signal transduction response to endoplasmic reticulum stress	membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system cytoplasm cytosol protein-containing complex catalytic complex membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system cytoplasm cytosol protein-containing complex catalytic complex tRNA-splicing ligase complex intracellular protein-containing complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane
E [auth P]	Glutathione S-transferase class-mu 26 kDa isozyme,tRNA ligase complex-associated NAD(P)H dehydrogenase PYROXD1	glutathione transferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity NAD(P)H oxidase H2O2-forming activity oxidoreductase activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, oxygen as acceptor NADH dehydrogenase activity molecular sensor activity molecular function regulator activity NADPH dehydrogenase activity	glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process metabolic process cellular process RNA splicing RNA metabolic process RNA exon ligation primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA exon ligation glutathione metabolic process modified amino acid metabolic process sulfur compound metabolic process metabolic process cellular process RNA splicing RNA metabolic process RNA exon ligation primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA exon ligation RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing RNA processing macromolecule metabolic process cellular response to stimulus response to oxidative stress cellular response to chemical stimulus response to stimulus cellular response to stress response to stress response to chemical cellular response to oxidative stress cellular response to chemical stress	intracellular anatomical structure intracellular membraneless organelle sarcomere intracellular organelle cellular anatomical structure organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex cytosol intracellular anatomical structure intracellular membraneless organelle sarcomere intracellular organelle cellular anatomical structure organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex cytosol membrane-bounded organelle nucleus intracellular membrane-bounded organelle
D	ATP-dependent RNA helicase DDX1,Green fluorescent protein	nuclease activity catalytic activity, acting on a nucleic acid catalytic activity RNA binding double-stranded RNA binding binding nucleic acid binding nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity ATP-dependent activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity RNA binding double-stranded RNA binding binding nucleic acid binding nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity ATP-dependent activity, acting on DNA DNA/RNA helicase activity catalytic activity, acting on DNA macromolecular conformation isomerase activity transcription regulator activity transcription coregulator activity chromatin 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 poly(A) binding poly-purine tract binding single-stranded 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 RNA helicase activity	bioluminescence metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction bioluminescence metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling ribonucleoprotein complex biogenesis RNA metabolic process mRNA processing protein-RNA complex assembly cellular component organization cellular component biogenesis nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process spliceosomal complex assembly protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis RNA processing RNA splicing protein-containing complex organization primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process regulation of immune effector process multicellular organismal process positive regulation of leukocyte mediated immunity regulation of myeloid leukocyte mediated immunity positive regulation of macromolecule biosynthetic process myeloid leukocyte mediated immunity positive regulation of metabolic process dendritic cell cytokine production cytokine production leukocyte mediated immunity regulation of immune system process positive regulation of macromolecule metabolic process positive regulation of immune system process regulation of cytokine production involved in immune response immune response immune effector process regulation of gene expression regulation of leukocyte mediated immunity myeloid dendritic cell cytokine production positive regulation of myeloid leukocyte mediated immunity positive regulation of production of molecular mediator of immune response positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process regulation of production of molecular mediator of immune response positive regulation of cytokine production regulation of metabolic process positive regulation of dendritic cell cytokine production regulation of myeloid dendritic cell cytokine production positive regulation of biosynthetic process positive regulation of myeloid leukocyte cytokine production involved in immune response regulation of dendritic cell cytokine production regulation of cytokine production regulation of multicellular organismal process positive regulation of immune effector process myeloid leukocyte cytokine production cytokine production involved in immune response production of molecular mediator of immune response regulation of biosynthetic process regulation of macromolecule metabolic process positive regulation of myeloid dendritic cell cytokine production positive regulation of gene expression immune system process positive regulation of cytokine production involved in immune response protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression translational initiation protein metabolic process regulation of translational initiation regulation of protein metabolic process translation regulation of translation localization protein localization to cytoplasmic stress granule protein localization to organelle macromolecule localization intracellular protein localization double-strand break repair DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation RNA splicing, via endonucleolytic cleavage and ligation tRNA processing	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule membrane cytosol tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen nuclear body cleavage body ribonucleoprotein complex
C	RNA transcription, translation and transport factor protein	RNA polymerase binding protein binding binding RNA polymerase II complex binding RNA polymerase core enzyme binding enzyme binding RNA binding nucleic acid binding identical protein binding	regulation of cellular process regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity regulation of primary metabolic process negative regulation of kinase activity phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein metabolic process regulation of cellular process regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process negative regulation of catalytic activity regulation of transferase activity regulation of primary metabolic process negative regulation of kinase activity phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein metabolic process protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biological process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process biological regulation negative regulation of molecular function primary metabolic process negative regulation of protein kinase activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification regulation of phosphorylation cellular process metabolic process macromolecule metabolic process negative regulation of phosphorylation regulation of metabolic process localization RNA transport nitrogen compound transport establishment of RNA localization transport macromolecule localization nucleic acid transport RNA localization establishment of localization nucleobase-containing compound transport RNA splicing RNA metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing RNA processing positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription	intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol perinuclear region of cytoplasm mitotic spindle intracellular organelle centrosome microtubule organizing center cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol perinuclear region of cytoplasm mitotic spindle spindle tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
B	Protein FAM98B	catalytic activity, acting on a protein transferase activity, transferring one-carbon groups protein methyltransferase activity transferase activity methyltransferase activity catalytic activity RNA binding binding nucleic acid binding identical protein binding protein binding	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing metabolic process cellular process RNA processing macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm cellular anatomical structure intracellular anatomical structure cytoplasm tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen
A	Ashwin	-	RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing RNA splicing RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process tRNA metabolic process tRNA splicing, via endonucleolytic cleavage and ligation nucleic acid biosynthetic process biosynthetic process RNA splicing, via endonucleolytic cleavage and ligation tRNA processing metabolic process cellular process RNA processing macromolecule metabolic process developmental process multicellular organism development multicellular organismal process anatomical structure morphogenesis embryonic morphogenesis anatomical structure development embryo development	cellular anatomical structure intracellular anatomical structure cytoplasm tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm cellular anatomical structure intracellular anatomical structure cytoplasm tRNA-splicing ligase complex protein-containing complex catalytic complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F [auth R]	IPR036025	tRNA-splicing ligase RtcB-like superfamily	Homologous Superfamily
F [auth R]	IPR027513	RNA-splicing ligase RtcB homologue, eukaryotic	Family
F [auth R]	IPR001233	RNA-splicing ligase, RtcB	Family
E [auth P]	IPR004046	Glutathione S-transferase, C-terminal	Domain
E [auth P]	IPR050213	Glutathione S-transferase superfamily	Family
E [auth P]	IPR010987	Glutathione S-transferase, C-terminal-like	Domain
E [auth P]	IPR036282	Glutathione S-transferase, C-terminal domain superfamily	Homologous Superfamily
E [auth P]	IPR004045	Glutathione S-transferase, N-terminal	Domain
E [auth P]	IPR036249	Thioredoxin-like superfamily	Homologous Superfamily
E [auth P]	IPR040079	Glutathione transferase family	Family
E [auth P]	IPR041575	NADH-rubredoxin oxidoreductase, C-terminal	Domain
E [auth P]	IPR050260	FAD-dependent oxidoreductase	Family
E [auth P]	IPR016156	FAD/NAD-linked reductase, dimerisation domain superfamily	Homologous Superfamily
E [auth P]	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
E [auth P]	IPR023753	FAD/NAD(P)-binding domain	Domain
D	IPR000786	Green fluorescent protein, GFP	Family
D	IPR011584	Green fluorescent protein-related	Family
D	IPR009017	Green fluorescent protein	Homologous Superfamily
D	IPR014014	RNA helicase, DEAD-box type, Q motif	Conserved Site
D	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
D	IPR043136	B30.2/SPRY domain superfamily	Homologous Superfamily
D	IPR011545	DEAD/DEAH-box helicase domain	Domain
D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D	IPR003877	SPRY domain	Domain
D	IPR001870	B30.2/SPRY domain	Domain
D	IPR001650	Helicase, C-terminal domain-like	Domain
D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
C	IPR019265	RNA transcription, translation and transport factor protein	Family
B	IPR018797	FAM98	Family
A	IPR024887	Ashwin	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
F [auth R]	: Q9Y3I0	acute myeloid leukemia lung cancer congestive heart failure pancreatic ductal adenocarcinoma diabetes mellitus primary cutaneous T-cell non-Hodgkin lymphoma
E [auth P]	: Q8WU10	myofibrillar myopathy 8 myopathy myofibrillar myopathy astrocytic tumor muscle tissue disease Pick disease diabetes mellitus muscular disease progressive supranuclear palsy limb-girdle muscular dystrophy osteosarcoma psoriasis
D	: Q92499	endometrial hyperplasia substance abuse Substance Use Disorders atypical endometrial hyperplasia complex endometrial hyperplasia hereditary Wilms tumor medulloblastoma Perlman syndrome substance-related disorder chronic kidney disease kidney Wilms tumor simple endometrial hyperplasia substance dependence chronic myelogenous leukemia, BCR-ABL1 positive drug dependence endometrial hyperplasia substance abuse Substance Use Disorders atypical endometrial hyperplasia complex endometrial hyperplasia hereditary Wilms tumor medulloblastoma Perlman syndrome substance-related disorder chronic kidney disease kidney Wilms tumor simple endometrial hyperplasia substance dependence chronic myelogenous leukemia, BCR-ABL1 positive drug dependence lung cancer ovarian cancer plasma cell myeloma
C	: Q9Y224	Barrett esophagus lung cancer plasma cell myeloma breast cancer lymphoplasmacytic lymphoma X-linked mixed deafness with perilymphatic gusher diabetes mellitus ovarian cancer
B	: Q52LJ0	endogenous depression gastric carcinoma hypothyroidism ovarian cancer rheumatoid arthritis exocrine pancreatic carcinoma Hashimoto thyroiditis malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma systemic lupus erythematosus gastric cancer hepatocellular carcinoma myopathy Pick disease
A	: Q9BVC5	atypical teratoid rhabdoid tumor lung cancer oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm glioblastoma malignant ependymoma osteosarcoma psoriasis large cell medulloblastoma medulloblastoma ovarian cancer