8ODP | pdb_00008odp

Structure of human RTCB with GMPCPP in complex with Archease

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	MTH1598-like	8063586	3000987	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	MTH1598-like	8063586	3000987	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	MTH1598-like	8063586	3000987	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	MTH1598-like	8063586	3000987	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H	PF01951	Archease protein family (MTH1598/TM1083) (Archease)	Archease protein family (MTH1598/TM1083)	This archease family of proteins [1], has two SHS2 domains [2], with one inserted into another. It is predicted to be an enzyme [2]. It is predicted to act as a chaperone in DNA/RNA metabolism [1].	Domain
A, C, E, G	PF01139	tRNA-splicing ligase RtcB (RtcB)	tRNA-splicing ligase RtcB	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	Protein archease	cation binding ion binding binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process tRNA processing metabolic process cellular process RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process tRNA processing metabolic process cellular process macromolecule metabolic process RNA processing	-
A, C, E, G	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 guanyl nucleotide binding 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 guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding	developmental process placenta development animal organ development anatomical structure development 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 developmental process placenta development animal organ development anatomical structure development 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 multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development	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 tRNA-splicing ligase complex protein-containing 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 tRNA-splicing ligase complex protein-containing complex catalytic 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR023572	Archease domain	Domain
B, D, F, H	IPR002804	Archease	Family
B, D, F, H	IPR036820	Archease domain superfamily	Homologous Superfamily
A, C, E, G	IPR036025	tRNA-splicing ligase RtcB-like superfamily	Homologous Superfamily
A, C, E, G	IPR027513	RNA-splicing ligase RtcB homologue, eukaryotic	Family
A, C, E, G	IPR001233	RNA-splicing ligase, RtcB	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C, E, G	Pharos: Q9Y3I0	acute myeloid leukemia lung cancer congestive heart failure pancreatic ductal adenocarcinoma diabetes mellitus primary cutaneous T-cell non-Hodgkin lymphoma

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.