Protein stability in nanocages: a novel approach for influencing protein stability by molecular confinement.


Abstract

Confinement of a protein in a small inert space and microviscosity are known to increase its thermodynamic stability in a way similar to the mechanisms that stabilize protein fold in the cell. Here, to examine the influence of confinement on protein stability we choose four test cases of single domain proteins characterized by a wide range of melting temperatures, from approximately 73 degrees C of titin I27 to approximately 36 degrees C of yeast frataxin. All proteins are stabilized when confined in the gel, the most dramatic stabilization being that of yeast frataxin, whose melting temperature increased by almost 5 degrees C in the gel. In addition to being simple to use, this approach allows us to change the viscosity of the solvent without changing its composition or altering the structure of the proteins. The dimensions of the pores of the gels fall in the nanometer range, hence they are similar to those of the chaperone cavity. This method could therefore be used as a novel and powerful approach for protein folding studies. Study holds ProTherm entries: 16993, 16994, 16995, 16996, 16997, 16998, 16999, 17000, 17001, 17002, 17003, 17004, 17005, 17006, 17007, 17008, 17009, 17010, 17011, 17012, 17013, 17014 Extra Details: viscosity; confinement; nanocages; chaperones; fluorescence

Submission Details

ID: GzA7h6WT3

Submitter: Connie Wang

Submission Date: April 24, 2018, 8:49 p.m.

Version: 1

Publication Details
Bolis D;Politou AS;Kelly G;Pastore A;Temussi PA,J. Mol. Biol. (2004) Protein stability in nanocages: a novel approach for influencing protein stability by molecular confinement. PMID:14741216
Additional Information

Structure view and single mutant data analysis

Study data

No weblogo for data of varying length.
Colors: D E R H K S T N Q A V I L M F Y W C G P
 

Data Distribution

Studies with similar sequences (approximate matches)

Correlation with other assays (exact sequence matches)


Relevant PDB Entries

Structure ID Release Date Resolution Structure Title
1EW4 2000-04-22T00:00:00+0000 1.4 CRYSTAL STRUCTURE OF ESCHERICHIA COLI CYAY PROTEIN REVEALS A NOVEL FOLD FOR THE FRATAXIN FAMILY
1SOY 2004-03-16T00:00:00+0000 0 Solution structure of the bacterial frataxin orthologue, CyaY
2EFF 2007-02-22T00:00:00+0000 1.8 Crystal structure analysis of the complex between CyaY and Co(II)
2P1X 2007-03-06T00:00:00+0000 1.42 Crystal structure analysis of the complex between CyaY and Eu(III)
1EKG 2000-03-08T00:00:00+0000 1.8 MATURE HUMAN FRATAXIN
1LY7 2002-06-07T00:00:00+0000 0 The solution structure of the the c-terminal domain of frataxin, the protein responsible for friedreich ataxia
3S4M 2011-05-19T00:00:00+0000 1.3 Crystal structure of wild-type human frataxin
3S5D 2011-05-23T00:00:00+0000 1.5 Crystal structure of human frataxin variant W155A
3S5E 2011-05-23T00:00:00+0000 1.31 Crystal structure of human frataxin variant W155R, one of the Friedreich's ataxia point mutations
3S5F 2011-05-23T00:00:00+0000 1.5 Crystal structure of human frataxin variant W155F

Relevant UniProtKB Entries

Percent Identity Matching Chains Protein Accession Entry Name
90.6 Iron-sulfur cluster assembly protein CyaY A7MQK4 CYAY_CROS8
90.6 Iron-sulfur cluster assembly protein CyaY A4WG10 CYAY_ENT38
92.5 Iron-sulfur cluster assembly protein CyaY B5BIV3 CYAY_SALPK
92.5 Iron-sulfur cluster assembly protein CyaY Q5PKM9 CYAY_SALPA
92.5 Iron-sulfur cluster assembly protein CyaY C0Q3B5 CYAY_SALPC
92.5 Iron-sulfur cluster assembly protein CyaY Q57HR5 CYAY_SALCH
94.3 Iron-sulfur cluster assembly protein CyaY B4TNV5 CYAY_SALSV
93.4 Iron-sulfur cluster assembly protein CyaY B4SZ48 CYAY_SALNS
94.3 Iron-sulfur cluster assembly protein CyaY A9MY64 CYAY_SALPB
94.3 Iron-sulfur cluster assembly protein CyaY A9MJ08 CYAY_SALAR
94.3 Iron-sulfur cluster assembly protein CyaY P56978 CYAY_SALTY
94.3 Iron-sulfur cluster assembly protein CyaY Q8Z3A4 CYAY_SALTI
94.3 Iron-sulfur cluster assembly protein CyaY B5RFQ2 CYAY_SALG2
94.3 Iron-sulfur cluster assembly protein CyaY B5QVJ3 CYAY_SALEP
94.3 Iron-sulfur cluster assembly protein CyaY B5FNU2 CYAY_SALDC
98.1 Iron-sulfur cluster assembly protein CyaY Q0SYZ5 CYAY_SHIF8
95.3 Iron-sulfur cluster assembly protein CyaY B5EZ64 CYAY_SALA4
96.2 Iron-sulfur cluster assembly protein CyaY B4TB34 CYAY_SALHS
94.3 Iron-sulfur cluster assembly protein CyaY B5XYK9 CYAY_KLEP3
95.3 Iron-sulfur cluster assembly protein CyaY A6TGJ0 CYAY_KLEP7
96.2 Iron-sulfur cluster assembly protein CyaY A8ACV5 CYAY_CITK8
99.1 Iron-sulfur cluster assembly protein CyaY Q83IX2 CYAY_SHIFL
99.1 Iron-sulfur cluster assembly protein CyaY B5YY53 CYAY_ECO5E
99.1 Iron-sulfur cluster assembly protein CyaY Q8XAP0 CYAY_ECO57
98.1 Iron-sulfur cluster assembly protein CyaY Q8FBN9 CYAY_ECOL6
99.1 Iron-sulfur cluster assembly protein CyaY A8A6R1 CYAY_ECOHS
99.1 Iron-sulfur cluster assembly protein CyaY B7LU51 CYAY_ESCF3
99.1 Iron-sulfur cluster assembly protein CyaY Q31UI1 CYAY_SHIBS
99.1 Iron-sulfur cluster assembly protein CyaY B2TUW2 CYAY_SHIB3
99.1 Iron-sulfur cluster assembly protein CyaY Q1R4D1 CYAY_ECOUT
99.1 Iron-sulfur cluster assembly protein CyaY Q0TAR9 CYAY_ECOL5
99.1 Iron-sulfur cluster assembly protein CyaY A1AHX3 CYAY_ECOK1
99.1 Iron-sulfur cluster assembly protein CyaY B7N297 CYAY_ECO81
99.1 Iron-sulfur cluster assembly protein CyaY B7MH68 CYAY_ECO45
99.1 Iron-sulfur cluster assembly protein CyaY B7UNC2 CYAY_ECO27
99.1 Iron-sulfur cluster assembly protein CyaY B7NTD8 CYAY_ECO7I
99.1 Iron-sulfur cluster assembly protein CyaY B1LLX7 CYAY_ECOSM
100.0 Iron-sulfur cluster assembly protein CyaY Q3YVG0 CYAY_SHISS
100.0 Iron-sulfur cluster assembly protein CyaY Q329Y2 CYAY_SHIDS
100.0 Iron-sulfur cluster assembly protein CyaY B6I4E2 CYAY_ECOSE
100.0 Iron-sulfur cluster assembly protein CyaY B7NFA9 CYAY_ECOLU
100.0 Iron-sulfur cluster assembly protein CyaY P27838 CYAY_ECOLI
100.0 Iron-sulfur cluster assembly protein CyaY B1IW97 CYAY_ECOLC
100.0 Iron-sulfur cluster assembly protein CyaY B1XAH3 CYAY_ECODH
100.0 Iron-sulfur cluster assembly protein CyaY C4ZZ71 CYAY_ECOBW
100.0 Iron-sulfur cluster assembly protein CyaY B7M605 CYAY_ECO8A
100.0 Iron-sulfur cluster assembly protein CyaY B7L963 CYAY_ECO55
100.0 Iron-sulfur cluster assembly protein CyaY A7ZU09 CYAY_ECO24
100.0 60S ribosomal subunit assembly/export protein LOC1 P43586 LOC1_YEAST
100.0 60S ribosomal subunit assembly/export protein LOC1 A7A239 LOC1_YEAS7
90.9 TITIN A2ASS6 TITIN_MOUSE
100.0 Titin Q8WZ42 TITIN_HUMAN
96.8 Frataxin, mitochondrial Q8HXX9 FRDA_MACFA
100.0 Frataxin, mitochondrial Q16595 FRDA_HUMAN
95.0 Frataxin, mitochondrial O35943 FRDA_MOUSE
95.1 Frataxin, mitochondrial Q05B87 FRDA_BOVIN