Biology:Ribonuclease 4

Short description: Protein-coding gene in the species Homo sapiens

Generic protein structure example

Ribonuclease 4 is an enzyme that in humans is encoded by the RNASE4 gene.

Shown is a PyMol image of the ribonuclease 4 dimer, blue, with deoxyuridine monophosphate , white, in the active site. PDB: 2RNF

Function

The protein encoded by this gene belongs to the pancreatic ribonuclease family. Secreted ribonucleases are the only enzyme family that is vertebrate-specific. Among the 13 members of this superfamily, ribonuclease 4 (RNase 4), is the most conserved gene across different vertebrate species. The human form of RNase 4 is an intracellular and plasma enzyme which was first isolated from colon adenocarcinoma cell line HT-29. It can be found in the pancreas, saliva, and the liver, displaying a similar distribution pattern to that of angiogenin (ANG). It plays an important role in mRNA cleavage and has marked specificity towards the 3' side of uridine nucleotides.

Alternative splicing results in two transcript variants encoding the same protein. RNase 4 is co-expressed and shares the same promoter with angiogenin (ANG), another member of this superfamily. Each gene splices to a unique downstream exon that contains its complete coding region. RNase 4 has also been studied in its involvement with amyotrophic lateral sclerosis (ALS), a nervous system disease, due to its similarity with ANG which has been associated with ALS pathogenesis.

Structure

The three residues Phe42, Arg101, Thr44 (shown in blue) contribute to the specificity of ribonuclease 4 by recognizing the deoxyuridine monophosphate (shown in white). PDB: 2RNF

RNase 4 features a unique structure compared to its homologous enzymes in the superfamily. It contains 119 amino acid residues making it the shortest known human RNase and contains no N-glycosylation sites. RNase 4 displays an α + β type polypeptide chain folding and a V-shape with the active site cleft in the middle. It contains three α-helices and four β -strands while the secondary structures are connected by six loops. There are four disulfide bridges located throughout the structure that connect the α-helices, β -strands, and loops. The overall structure of RNase 4 is similar to its homologous enzyme RNase A, EDN, and angiogenin.

A shorter C terminus is a unique feature of RNase 4 which places the carboxy terminus in the pyrimidine recognition site which results in RNase 4 unique specificity. The pyrimidine recognition site is where there are major difference compared to its homologous enzymes. It contains an arginine residue at position 101, a phenylalanine reside at 42, and a threonine residue at 44. These residues contribute to the ribonuclease 4 specificity and are adapted to recognize a uridine-type base over cytidine-containing substrates.

Further reading

• "Isolation and characterization of a human colon carcinoma-secreted enzyme with pancreatic ribonuclease-like activity". Biochemistry 25 (23): 7255–7264. November 1986. doi:10.1021/bi00371a002. PMID 3467790. 
• "Molecular cloning and expression of human ribonuclease 4 cDNA". Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression 1261 (3): 424–426. April 1995. doi:10.1016/0167-4781(95)00040-n. PMID 7742370. 
• "The amino acid sequence of human ribonuclease 4, a highly conserved ribonuclease that cleaves specifically on the 3' side of uridine". European Journal of Biochemistry 217 (1): 401–410. October 1993. doi:10.1111/j.1432-1033.1993.tb18259.x. PMID 8223579. 
• "Ribonucleases and host defense: identification, localization and gene expression in adherent monocytes in vitro". Biochimica et Biophysica Acta (BBA) - Molecular Cell Research 1358 (3): 255–260. October 1997. doi:10.1016/S0167-4889(97)00081-5. PMID 9366257. 
• "The three-dimensional structure of human RNase 4, unliganded and complexed with d(Up), reveals the basis for its uridine selectivity". Journal of Molecular Biology 285 (1): 205–214. January 1999. doi:10.1006/jmbi.1998.2288. PMID 9878400. 
• "Insight into hepatocellular carcinogenesis at transcriptome level by comparing gene expression profiles of hepatocellular carcinoma with those of corresponding noncancerous liver". Proceedings of the National Academy of Sciences of the United States of America 98 (26): 15089–15094. December 2001. doi:10.1073/pnas.241522398. PMID 11752456. Bibcode: 2001PNAS...9815089X. 
• "Towards a proteome-scale map of the human protein-protein interaction network". Nature 437 (7062): 1173–1178. October 2005. doi:10.1038/nature04209. PMID 16189514. Bibcode: 2005Natur.437.1173R.