RTCB

Available protein structures:
Pfam	structures / ECOD
PDB	RCSB PDB; PDBe; PDBj
PDBsum	structure summary

tRNA splicing ligase RtcB
tRNA splicing ligase RtcB
Identifiers
Symbol	RtcB
Pfam	PF01139
InterPro	IPR001233
PROSITE	PS01288
CATH	1uc2
SCOP2	1uc2 / SCOPe / SUPFAM
Pfam
Available protein structures:
Pfam	structures / ECOD
PDB	RCSB PDB; PDBe; PDBj
PDBsum	structure summary

RTCB
Identifiers
Aliases	RTCB, C22orf28, DJ149A16.6, FAAP, HSPC117, RNA 2',3'-cyclic phosphate and 5'-OH ligase
External IDs	OMIM: 613901 MGI: 106379 HomoloGene: 36344 GeneCards: RTCB
Gene location (Human)
Chr.	Chromosome 22 (human)
End	32,412,248 bp
Gene location (Mouse)
Chr.	Chromosome 10 (mouse)
End	85,793,687 bp
RNA expression pattern
	Top expressed in
	jejunal mucosa; ; islet of Langerhans; ; duodenum; ; rectum; ; skin of abdomen; ; smooth muscle tissue; ; stromal cell of endometrium; ; parotid gland; ; Achilles tendon; ; body of stomach;
	Top expressed in
	primitive streak; ; maxillary prominence; ; endocardial cushion; ; facial motor nucleus; ; vas deferens; ; superior cervical ganglion; ; abdominal wall; ; medullary collecting duct; ; somite; ; anterior horn of spinal cord;
	More reference expression data
	n/a
Gene ontology
Molecular function	vinculin binding; nucleotide binding; RNA ligase (ATP) activity; ligase activity; protein binding; ATP binding; RNA ligase activity; metal ion binding; RNA binding;
Cellular component	cytoplasm; tRNA-splicing ligase complex; nuclear envelope; endoplasmic reticulum membrane; nucleus; nucleoplasm; cytosol; intracellular membrane-bounded organelle;
Biological process	RNA processing; tRNA splicing, via endonucleolytic cleavage and ligation; tRNA processing; tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate; in utero embryonic development; placenta development;
	Sources:Amigo / QuickGO
Orthologs
	51493
	28088
	ENSG00000100220
	ENSMUSG00000001783
	Q9Y3I0
	Q99LF4
	NM_014306
	NM_145422
	NP_055121
	NP_663397
	Wikidata
View/Edit Human	View/Edit Mouse

RNA 2',3'-cyclic phosphate and 5'-OH ligase is a protein that in humans is encoded by the RTCB gene.^[5] It is found in the stress granule of cells.^[6]

Structure edit

As of June 2019^[update], no crystal structure of the human RTCB is known, but homology models built from other RtcB-family ligases are available (Swiss-model: Q9Y3I0). The structure of Pyrococcus horikoshii RtcB, which uses GTP instead of ATP, shows two manganese (Mn²⁺) cofactors, and a mechanism involving a covalently linked GTP-histidine-RtcB intermediate. The residue involved, H404, is conserved in human RTCB as H428.^[7]

Function edit

Protein family edit

RTCB belongs to the RtcB family of ATP-dependent RNA ligases, named after the eponymous protein in E. coli. The bacterial RtcB acts as a tRNA ligase, rejoining broken stem-loops in case of damage.^[8] It is also able to catalyse RNA splicing.^[9]

The eukaryotic homologs of RtcB, including the human RTCB protein, participates in the tRNA-splicing ligase complex.^[10]

References edit

^ ^a ^b ^c GRCh38: Ensembl release 89: ENSG00000100220 – Ensembl, May 2017
^ ^a ^b ^c GRCm38: Ensembl release 89: ENSMUSG00000001783 – Ensembl, May 2017
^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
^ "Entrez Gene: RNA 2',3'-cyclic phosphate and 5'-OH ligase". Retrieved 2019-06-06.
^ Jain S, Wheeler JR, Walters RW, Agrawal A, Barsic A, Parker R (January 2016). "ATPase-Modulated Stress Granules Contain a Diverse Proteome and Substructure". Cell. 164 (3): 487–98. doi:10.1016/j.cell.2015.12.038. PMC 4733397. PMID 26777405.
^ Desai KK, Bingman CA, Phillips GN, Raines RT (April 2013). "Structures of the noncanonical RNA ligase RtcB reveal the mechanism of histidine guanylylation". Biochemistry. 52 (15): 2518–25. doi:10.1021/bi4002375. PMC 3670941. PMID 23560983.
^ Tanaka N, Shuman S (March 2011). "RtcB is the RNA ligase component of an Escherichia coli RNA repair operon". The Journal of Biological Chemistry. 286 (10): 7727–31. doi:10.1074/jbc.C111.219022. PMC 3048659. PMID 21224389.
^ Tanaka N, Meineke B, Shuman S (September 2011). "RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo". The Journal of Biological Chemistry. 286 (35): 30253–7. doi:10.1074/jbc.C111.274597. PMC 3162383. PMID 21757685.
^ Popow J, Englert M, Weitzer S, Schleiffer A, Mierzwa B, Mechtler K, et al. (February 2011). "HSPC117 is the essential subunit of a human tRNA splicing ligase complex". Science. 331 (6018): 760–4. Bibcode:2011Sci...331..760P. doi:10.1126/science.1197847. hdl:11858/00-001M-0000-0011-5682-B. PMID 21311021. S2CID 1881494.

External links edit

MetaCyc: CPLX-9136: Homo sapiens tRNA-splicing ligase complex (GO:0072669)

This article on a gene on human chromosome 22 is a stub. You can help Wikipedia by expanding it.

[refGRCh38Ensembl-1] GRCh38: Ensembl release 89: ENSG00000100220 – Ensembl, May 2017

[refGRCm38Ensembl-2] GRCm38: Ensembl release 89: ENSMUSG00000001783 – Ensembl, May 2017

[3] "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[4] "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[entrez-5] "Entrez Gene: RNA 2',3'-cyclic phosphate and 5'-OH ligase". Retrieved 2019-06-06.

[Jain_2017-6] Jain S, Wheeler JR, Walters RW, Agrawal A, Barsic A, Parker R (January 2016). "ATPase-Modulated Stress Granules Contain a Diverse Proteome and Substructure". Cell. 164 (3): 487–98. doi:10.1016/j.cell.2015.12.038. PMC 4733397. PMID 26777405.

[7] Desai KK, Bingman CA, Phillips GN, Raines RT (April 2013). "Structures of the noncanonical RNA ligase RtcB reveal the mechanism of histidine guanylylation". Biochemistry. 52 (15): 2518–25. doi:10.1021/bi4002375. PMC 3670941. PMID 23560983.

[8] Tanaka N, Shuman S (March 2011). "RtcB is the RNA ligase component of an Escherichia coli RNA repair operon". The Journal of Biological Chemistry. 286 (10): 7727–31. doi:10.1074/jbc.C111.219022. PMC 3048659. PMID 21224389.

[9] Tanaka N, Meineke B, Shuman S (September 2011). "RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo". The Journal of Biological Chemistry. 286 (35): 30253–7. doi:10.1074/jbc.C111.274597. PMC 3162383. PMID 21757685.

[10] Popow J, Englert M, Weitzer S, Schleiffer A, Mierzwa B, Mechtler K, et al. (February 2011). "HSPC117 is the essential subunit of a human tRNA splicing ligase complex". Science. 331 (6018): 760–4. Bibcode:2011Sci...331..760P. doi:10.1126/science.1197847. hdl:11858/00-001M-0000-0011-5682-B. PMID 21311021. S2CID 1881494.

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