Sandbox Reserved 334: Difference between revisions
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{{STRUCTURE_1d5h | PDB=1d5h | SCENE= }} | {{STRUCTURE_1d5h | PDB=1d5h | SCENE= }} | ||
Ribonuclease S | Ribonuclease S (RNase S) is a modified version of Ribonuclease A, a pancreatic nuclease found in vertebrates (REF1). RNase S is synthesized by the proteolytic cleavage of RNase A by subtilisin (RNase 3). Neither of the resulting fragments have ribonuclease activity, but together as the RNase S complex it has full enzymatic activity (RNase S2). As a ribonuclease, RNase S functions to catalyze the hydrolysis of certain internucleotide linkages of RNA (REF2). | ||
Ribonuclease A | |||
=Structure and Function= | =Structure and Function= | ||
RNase S is composed of two fragments: the small fragment, S-peptide (residues 1-20), and the large fragment, S-protein (residues 21-124)<ref name= “Original”> PMID:11015216</ref>. These fragments remain tightly bound by non-covalent interactions<ref name= “RNase1”> PMID:16415350</ref>. The only observed change in covalent structure during the conversion of RNase A to RNase S is the hydrolysis of the peptide bond between the residues 20 and 21 (REF). This complex (RNase S) conserves the catalytic activity and native conformation of uncleaved RNase A, but shows a reduced conformational stability <ref name = "RNase1"/>. Two hydrophobic residues, methionine 13 and phenylalanine 8, of the S-peptide contribute significantly to the stability of RNase S,<ref name = “Original” /> while three residues (Phe 8, His 12, and Met 13) seem to be essential for the for the formation of the catalytically active RNase S<ref name= “RNase2”> PMID:8453373</ref>. It has four disulfide bonds that impose rigidity to the protein <ref name = "RNase1"/>. RNase S can form either as a monomer or dimer, which have similar backbone structures except for in the hinge loop region <ref name = "RNase1"/>. The dimer has a ''trans'' Asn113-Pro114 peptide bond in the hinge loop, whereas the monomer has a ''cis'' bond in this position <ref name = "RNase1"/>. The RNase S dimer shows significant activity against poly(A)poly(U) sequences and single stranded RNA, similar to the enzymatic activity of RNase A <ref name = "RNase1"/>. | RNase S is composed of two fragments: the small fragment, S-peptide (residues 1-20), and the large fragment, S-protein (residues 21-124)<ref name= “Original”> PMID:11015216</ref>. These fragments remain tightly bound by non-covalent interactions<ref name= “RNase1”> PMID:16415350</ref>. The only observed change in covalent structure during the conversion of RNase A to RNase S is the hydrolysis of the peptide bond between the residues 20 and 21 (REF). This complex (RNase S) conserves the catalytic activity and native conformation of uncleaved RNase A, but shows a reduced conformational stability <ref name = "RNase1"/>. Two hydrophobic residues, methionine 13 and phenylalanine 8, of the S-peptide contribute significantly to the stability of RNase S,<ref name = “Original” /> while three residues (Phe 8, His 12, and Met 13) seem to be essential for the for the formation of the catalytically active RNase S<ref name= “RNase2”> PMID:8453373</ref>. It has four disulfide bonds that impose rigidity to the protein <ref name = "RNase1"/>. RNase S can form either as a monomer or dimer, which have similar backbone structures except for in the hinge loop region <ref name = "RNase1"/>. The dimer has a ''trans'' Asn113-Pro114 peptide bond in the hinge loop, whereas the monomer has a ''cis'' bond in this position <ref name = "RNase1"/>. The RNase S dimer shows significant activity against poly(A)poly(U) sequences and single stranded RNA, similar to the enzymatic activity of RNase A <ref name = "RNase1"/>. | ||
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Ribonuclease SRibonuclease S
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| 1d5h, resolution 2.25Å () | |||||||||
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| Non-Standard Residues: | |||||||||
| Related: | 1rnv, 1d5d, 1d5e | ||||||||
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||
Ribonuclease S (RNase S) is a modified version of Ribonuclease A, a pancreatic nuclease found in vertebrates (REF1). RNase S is synthesized by the proteolytic cleavage of RNase A by subtilisin (RNase 3). Neither of the resulting fragments have ribonuclease activity, but together as the RNase S complex it has full enzymatic activity (RNase S2). As a ribonuclease, RNase S functions to catalyze the hydrolysis of certain internucleotide linkages of RNA (REF2).
Structure and FunctionStructure and Function
RNase S is composed of two fragments: the small fragment, S-peptide (residues 1-20), and the large fragment, S-protein (residues 21-124)[1]. These fragments remain tightly bound by non-covalent interactions[2]. The only observed change in covalent structure during the conversion of RNase A to RNase S is the hydrolysis of the peptide bond between the residues 20 and 21 (REF). This complex (RNase S) conserves the catalytic activity and native conformation of uncleaved RNase A, but shows a reduced conformational stability [3]. Two hydrophobic residues, methionine 13 and phenylalanine 8, of the S-peptide contribute significantly to the stability of RNase S,[1] while three residues (Phe 8, His 12, and Met 13) seem to be essential for the for the formation of the catalytically active RNase S[4]. It has four disulfide bonds that impose rigidity to the protein [3]. RNase S can form either as a monomer or dimer, which have similar backbone structures except for in the hinge loop region [3]. The dimer has a trans Asn113-Pro114 peptide bond in the hinge loop, whereas the monomer has a cis bond in this position [3]. The RNase S dimer shows significant activity against poly(A)poly(U) sequences and single stranded RNA, similar to the enzymatic activity of RNase A [3].
MechanismMechanism
Dimer FormationDimer Formation
Proteolysis of RNase S can activate oligomerization by destabilizing the native state [3]. This occurs via the three dimensional domain-swapping mechanism [3]. In this mechanism two monomers trade structural motifs called swap domains which adopt essentially identical conformations in the monomeric and oligomeric forms [3]. RNase S oligomerizes by swapping C termini, which are not cut by subtilisin [3].
Dissociation of RNase S DimersDissociation of RNase S Dimers
There are two possible pathways through which RNase S dimers dissociate; however, it is believed that dissociation occurs mainly through pathway 1 [3]. Pathway 1 involves the rapid separation and dissociation of the dimers due to a weakened union between the swapped β-strand and the S-protein moiety caused by the separation of S-peptide from one subunit which is the rate limiting step [3]. Whereas, pathway 2 has a rate limiting step of the separation of a swapped β-strand and hinge loop and the accompanying loss of stabilizing interactions [3].
ReferencesReferences
- ↑ 1.0 1.1 Ratnaparkhi GS, Varadarajan R. Thermodynamic and structural studies of cavity formation in proteins suggest that loss of packing interactions rather than the hydrophobic effect dominates the observed energetics. Biochemistry. 2000 Oct 10;39(40):12365-74. PMID:11015216
- ↑ Lopez-Alonso JP, Bruix M, Font J, Ribo M, Vilanova M, Rico M, Gotte G, Libonati M, Gonzalez C, Laurents DV. Formation, structure, and dissociation of the ribonuclease S three-dimensional domain-swapped dimer. J Biol Chem. 2006 Apr 7;281(14):9400-6. Epub 2006 Jan 16. PMID:16415350 doi:10.1074/jbc.M510491200
- ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 Cite error: Invalid
<ref>tag; no text was provided for refs namedRNase1 - ↑ Kim JS, Raines RT. Ribonuclease S-peptide as a carrier in fusion proteins. Protein Sci. 1993 Mar;2(3):348-56. PMID:8453373 doi:http://dx.doi.org/10.1002/pro.5560020307