Contribution of surface salt bridges to protein stability.


Abstract

The role of surface salt bridges in protein stabilization has been a source of controversy. Here we present the NMR structure of a hyperthermophilic rubredoxin variant (PFRD-XC4) and the thermodynamic analysis of two surface salt bridges by double mutant cycles. This analysis shows that the surface side chain to side chain salt bridge between Lys 6 and Glu 49 does not stabilize PFRD-XC4. The main chain to side chain salt bridge between the N-terminus and Glu 14 was, however, found to stabilize PFRD-XC4 by 1. 5 kcal mol(-)(1). The entropic cost of making a surface salt bridge involving the protein's backbone is reduced, since the backbone has already been immobilized upon protein folding. Study holds ProTherm entries: 7918, 7919, 7920, 7921, 7922, 7923, 7924, 7925, 7926, 7927, 7928, 7929, 7930, 7931, 7932, 7933, 7934, 7935, 7936, 7937, 7938, 7939, 7940, 7941, 7942 Extra Details: surface salt bridges; protein stabilization; hyperthermophilic,rubredoxin; protein folding

Submission Details

ID: gcNU3jda

Submitter: Connie Wang

Submission Date: April 24, 2018, 8:35 p.m.

Version: 1

Publication Details
Strop P;Mayo SL,Biochemistry (2000) Contribution of surface salt bridges to protein stability. PMID:10684603
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
1QCV 2000-02-18 RUBREDOXIN VARIANT (PFRD-XC4) FOLDS WITHOUT IRON
1ZRP 1993-10-31 SOLUTION-STATE STRUCTURE BY NMR OF ZINC-SUBSTITUTED RUBREDOXIN FROM THE MARINE HYPERTHERMOPHILIC ARCHAEBACTERIUM PYROCOCCUS FURIOSUS
3KYY 2010-04-28 Joint Xray/neutron crystal structure determination of H-labeled perdeuterated rubredoxin at 295K
1RWD 2003-12-23 Backbone NMR Structure of a Mutant P. Furiosus Rubredoxin Using Residual Dipolar Couplings
5NW3 2017-06-07 0.59 The cryofrozen atomic resolution X-ray crystal structure of perdeuterated Pyrococcus furiosus Rubredoxin (100K, 0.59A resolution)
5OME 2018-09-05 0.75 The cryofrozen atomic resolution X-ray crystal structure of the reduced form (Fe2+) perdeuterated Pyrococcus furiosus Rubredoxin in D2O (100K, 0.75 Angstrom resolution)
4AR6 2012-12-19 0.92 X-ray crystallographic structure of the reduced form perdeuterated Pyrococcus furiosus rubredoxin at 295 K (in quartz capillary) to 0.92 Angstroms resolution.
1BRF 1998-09-02 0.95 Rubredoxin (Wild Type) from Pyrococcus Furiosus
4AR5 2012-12-19 1.0 X-ray crystallographic structure of the oxidised form perdeuterated Pyrococcus furiosus rubredoxin in D2O at 295K (in quartz capillary) to 1.00 Angstrom resolution.
5AI3 2016-03-02 1.02 X-ray structure of 113Cd-substituted Perdeuterated Pyrococcus furiosus rubredoxin to 1.02A resolution at 295K in a quartz capillary
2PVX 2007-12-18 1.04 NMR and X-ray Analysis of Structural Additivity in Metal Binding Site-Swapped Hybrids of Rubredoxin
4AR3 2013-01-16 1.05 Near-atomic resolution neutron crystallography on the oxidised form perdeuterated Pyrococcus furiosus rubredoxin.
3KYV 2010-04-28 1.1 Denovo X-ray crystal structure determination of H-labeled perdeuterated rubredoxin at 100K
3KYW 2010-04-28 1.1 Xray crystal structure determination of H-labeled perdeuterated rubredoxin at 295K
1BQ8 1998-08-26 1.1 Rubredoxin (Methionine Mutant) from Pyrococcus Furiosus
3KYU 2010-04-28 1.1 X-ray crystal structure determination of fully perdeuterated rubredoxin at 100K
1BQ9 1998-08-26 1.2 Rubredoxin (Formyl Methionine Mutant) from Pyrococcus Furiosus
4AR4 2013-01-16 1.38 Neutron crystallographic structure of the reduced form perdeuterated Pyrococcus furiosus rubredoxin to 1.38 Angstrom resolution.
1VCX 2004-08-10 1.5 Neutron Crystal Structure of the Wild Type Rubredoxin from Pyrococcus Furiosus at 1.5A Resolution
1IU5 2002-08-27 1.5 X-ray Crystal Structure of the rubredoxin mutant from Pyrococcus Furiosus
1IU6 2002-08-27 1.6 Neutron Crystal Structure of the rubredoxin mutant from Pyrococcus Furiosus
3KYX 2010-04-28 1.67 Joint Xray/neutron crystal structure determination of fully perdeuterated rubredoxin at 295K
5AI2 2016-03-02 1.75 Anomalous Neutron phased crystal structure of 113Cd-substituted Perdeuterated Pyrococcus furiosus rubredoxin to 1.75A resolution at 295K
3RZ6 2011-12-28 1.75 Neutron structure of perdeuterated rubredoxin using 40 hours 1st pass data
3RYG 2011-12-28 1.75 128 hours neutron structure of perdeuterated rubredoxin
3SS2 2011-12-28 1.75 Neutron structure of perdeuterated rubredoxin using 48 hours 3rd pass data
3RZT 2011-12-28 1.75 Neutron structure of perdeuterated rubredoxin using rapid (14 hours) data
4K9F 2013-12-04 1.75 Neutron structure of Perdeuterated Rubredoxin refined against 1.75 resolution data collected on the new IMAGINE instrument at HFIR, ORNL
1CAA 1993-10-31 1.8 X-RAY CRYSTAL STRUCTURES OF THE OXIDIZED AND REDUCED FORMS OF THE RUBREDOXIN FROM THE MARINE HYPERTHERMOPHILIC ARCHAEBACTERIUM PYROCOCCUS FURIOSUS
1CAD 1993-10-31 1.8 X-RAY CRYSTAL STRUCTURES OF THE OXIDIZED AND REDUCED FORMS OF THE RUBREDOXIN FROM THE MARINE HYPERTHERMOPHILIC ARCHAEBACTERIUM PYROCOCCUS FURIOSUS

Relevant UniProtKB Entries

Percent Identity Matching Chains Protein Accession Entry Name
100.0 Rubredoxin P24297 RUBR_PYRFU