The name of this superfamily has been modified since the most recent official CATH+ release (v4_3_0). At the point of the last release, this superfamily was named:

"
tRNA-splicing ligase RtcB
".

Functional Families

Overview of the Structural Clusters (SC) and Functional Families within this CATH Superfamily. Clusters with a representative structure are represented by a filled circle.
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FunFam 1: tRNA-splicing ligase RtcB homolog

Please note: GO annotations are assigned to the full protein sequence rather than individual protein domains. Since a given protein can contain multiple domains, it is possible that some of the annotations below come from additional domains that occur in the same protein, but have been classified elsewhere in CATH.

There are 9 GO terms relating to "molecular function"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
RNA ligase (ATP) activity GO:0003972
Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
20 A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) Q19PY3 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS)
(10 more)
RNA ligase (ATP) activity GO:0003972
Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
10 P90838 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP) Q9Y3I0 (/IMP)
RNA binding GO:0003723
Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
9 Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA) Q9Y3I0 (/HDA)
RNA ligase (ATP) activity GO:0003972
Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Protein binding GO:0005515
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
9 Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI)
Vinculin binding GO:0017166
Interacting selectively and non-covalently with vinculin, a protein found in muscle, fibroblasts, and epithelial cells that binds actin and appears to mediate attachment of actin filaments to integral proteins of the plasma membrane.
9 Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI) Q9Y3I0 (/IPI)
RNA ligase (ATP) activity GO:0003972
Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Vinculin binding GO:0017166
Interacting selectively and non-covalently with vinculin, a protein found in muscle, fibroblasts, and epithelial cells that binds actin and appears to mediate attachment of actin filaments to integral proteins of the plasma membrane.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
RNA ligase activity GO:0008452
Catalysis of the formation of a phosphodiester bond between a hydroxyl group at the end of one RNA chain and the 5'-phosphate group at the end of another.
1 Q8ZY09 (/TAS)

There are 10 GO terms relating to "biological process"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
TRNA splicing, via endonucleolytic cleavage and ligation GO:0006388
Splicing of tRNA substrates via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons.
20 A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) Q19PY3 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS)
(10 more)
TRNA splicing, via endonucleolytic cleavage and ligation GO:0006388
Splicing of tRNA substrates via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons.
10 Q8ZY09 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
TRNA splicing, via endonucleolytic cleavage and ligation GO:0006388
Splicing of tRNA substrates via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons.
9 Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS)
In utero embryonic development GO:0001701
The process whose specific outcome is the progression of the embryo in the uterus over time, from formation of the zygote in the oviduct, to birth. An example of this process is found in Mus musculus.
2 Q99LF4 (/IMP) Q99LF4 (/IMP)
Placenta development GO:0001890
The process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin.
2 Q99LF4 (/IMP) Q99LF4 (/IMP)
TRNA splicing, via endonucleolytic cleavage and ligation GO:0006388
Splicing of tRNA substrates via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
TRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate GO:0000971
A tRNA exon ligation process in which the splice junction phosphate is derived from the 2',3' cyclic phosphate at the 3'-end of the 5'-exon. This type of ligation to rejoin the 5' and 3' exons of a tRNA is observed in wheat, Chlamydomonas, and vertebrate species including humans.
1 P90838 (/IMP)
Germ cell development GO:0007281
The process whose specific outcome is the progression of an immature germ cell over time, from its formation to the mature structure (gamete). A germ cell is any reproductive cell in a multicellular organism.
1 P90838 (/IMP)
Vulval development GO:0040025
The process whose specific outcome is the progression of the egg-laying organ of female and hermaphrodite nematodes over time, from its formation to the mature structure. In nematodes, the vulva is formed from ventral epidermal cells during larval stages to give rise to a fully formed vulva in the adult.
1 P90838 (/IMP)
Positive regulation of tRNA processing GO:2000237
Any process that activates or increases the frequency, rate or extent of tRNA processing.
1 Q9VIW7 (/IMP)

There are 24 GO terms relating to "cellular component"

The search results have been sorted with the annotations that are found most frequently at the top of the list. The results can be filtered by typing text into the search box at the top of the table.
GO Term Annotations Evidence
TRNA-splicing ligase complex GO:0072669
A protein complex that catalyzes the ligation of cleaved pre-tRNAs by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester.
21 A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) P90838 (/ISS) Q19PY3 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS)
(11 more)
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
20 A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) Q19PY3 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS)
(10 more)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
18 A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) A9CB42 (/ISS) Q19PY3 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS) Q4R6X4 (/ISS)
(8 more)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
12 P90838 (/IDA) Q99LF4 (/IDA) Q99LF4 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
(2 more)
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
10 P90838 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Nuclear envelope GO:0005635
The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
9 Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS) Q9Y3I0 (/TAS)
Endoplasmic reticulum membrane GO:0005789
The lipid bilayer surrounding the endoplasmic reticulum.
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Cytosol GO:0005829
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Intracellular membrane-bounded organelle GO:0043231
Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
TRNA-splicing ligase complex GO:0072669
A protein complex that catalyzes the ligation of cleaved pre-tRNAs by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester.
9 Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA) Q9Y3I0 (/IDA)
Extracellular region GO:0005576
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
6 P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA)
Cell wall GO:0005618
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
6 P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA) P9WGW5 (/HDA)
Nucleus GO:0005634
A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Nuclear envelope GO:0005635
The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Nucleoplasm GO:0005654
That part of the nuclear content other than the chromosomes or the nucleolus.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Cytoplasm GO:0005737
All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Endoplasmic reticulum membrane GO:0005789
The lipid bilayer surrounding the endoplasmic reticulum.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Cytosol GO:0005829
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Intracellular membrane-bounded organelle GO:0043231
Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
TRNA-splicing ligase complex GO:0072669
A protein complex that catalyzes the ligation of cleaved pre-tRNAs by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester.
2 Q99LF4 (/ISO) Q99LF4 (/ISO)
Nuclear envelope GO:0005635
The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
1 P90838 (/ISS)
Endoplasmic reticulum membrane GO:0005789
The lipid bilayer surrounding the endoplasmic reticulum.
1 P90838 (/ISS)