Sandbox Reserved 334: Difference between revisions
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=Mechanism= | =Mechanism= | ||
==Dimer Formation== | ==Dimer Formation== | ||
Proteolysis of RNase S can activate oligomerization by destabilizing the native state<ref name= "RNase1" />. This occurs via the three dimensional domain-swapping mechanism<ref name= " | Proteolysis of RNase S can activate oligomerization by destabilizing the native state<ref name= "RNase1" />. This occurs via the three dimensional domain-swapping mechanism<ref name="RNaseS" />. In this mechanism two monomers trade structural motifs called swap domains which adopt essentially identical conformations in the monomeric and oligomeric forms<ref name= "RNase1" />. RNase S oligomerizes by swapping C termini, which are not cut by subtilisin<ref name= "RNase1" />. | ||
==Dissociation of RNase S Dimers== | ==Dissociation of RNase S Dimers== | ||
=references= | =references= | ||
<references /> | <references /> | ||
Revision as of 05:03, 18 March 2011
| This Sandbox is Reserved from January 10, 2010, through April 10, 2011 for use in BCMB 307-Proteins course taught by Andrea Gorrell at the University of Northern British Columbia, Prince George, BC, Canada. |
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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 Ribonuclease A [1]
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)[2]. These fragments remain tightly bound by non-covalent interactions[3]. 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,[2] 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[5]. This occurs via the three dimensional domain-swapping mechanism[6]. In this mechanism two monomers trade structural motifs called swap domains which adopt essentially identical conformations in the monomeric and oligomeric forms[5]. RNase S oligomerizes by swapping C termini, which are not cut by subtilisin[5].
Dissociation of RNase S DimersDissociation of RNase S Dimers
referencesreferences
- ↑ Watkins RW, Arnold U, Raines RT. Ribonuclease S redux. Chem Commun (Camb). 2011 Jan 21;47(3):973-5. Epub 2010 Nov 16. PMID:21079871 doi:10.1039/c0cc03864d
- ↑ 2.0 2.1 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
- ↑ 3.0 3.1 3.2 3.3 3.4 3.5 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
- ↑ 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
- ↑ 5.0 5.1 5.2 Cite error: Invalid
<ref>tag; no text was provided for refs namedRNase1 - ↑ Cite error: Invalid
<ref>tag; no text was provided for refs namedRNaseS