Folding of beta-sandwich proteins: three-state transition of a fibronectin type III module.


Abstract

An analysis of the folding of the 94 residue tenth fibronectin type III (fnIII) domain of human fibronectin (FNfn10) is presented. Use of guanidine isothiocyanate as a denaturant allows us to obtain equilibrium and kinetic data across a broad range of denaturant concentrations that are unavailable in guanidine hydrochloride. Equilibrium unfolding experiments show that FNfn10 is significantly more stable than has been reported previously. Comparison of equilibrium and kinetic parameters reveals the presence of an intermediate that accumulates at low denaturant concentrations. This is the first demonstration of three-state folding kinetics for a fnIII domain. We have previously shown that a homologous domain from human tenascin (TNfn3) folds by a two-state mechanism, but this does not necessarily indicate that the two proteins fold by different folding pathways. Study holds ProTherm entries: 8084, 8085, 8086 Extra Details: FNfn10; tenth fnIII domain of fibronectin

Submission Details

ID: f4dhpfV8

Submitter: Connie Wang

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

Version: 1

Publication Details
Cota E;Clarke J,Protein Sci. (2000) Folding of beta-sandwich proteins: three-state transition of a fibronectin type III module. PMID:10739253
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
2FN2 1998-09-16 SOLUTION NMR STRUCTURE OF THE GLYCOSYLATED SECOND TYPE TWO MODULE OF FIBRONECTIN, 20 STRUCTURES
2CKU 2007-04-03 Solution structure of 2F13F1 from human fibronectin
1Q38 2003-11-04 Anastellin
1FW7 2003-06-10 NMR STRUCTURE OF 15N-LABELED BARNASE
2H41 2007-04-10 Solution structure of the second type III domain of human Fibronectin: minimized average structure
1TTF 1994-01-31 THE THREE-DIMENSIONAL STRUCTURE OF THE TENTH TYPE III MODULE OF FIBRONECTIN: AN INSIGHT INTO RGD-MEDIATED INTERACTIONS
2H45 2007-04-10 Solution structure of the second type III domain of human Fibronectin: ensemble of 25 structures
2KF3 2009-12-08 Barnase, low pressure reference NMR structure
1FBR 1995-10-15 FOURTH AND FIFTH FIBRONECTIN TYPE I MODULE PAIR
5M0A 2017-11-29 Solution structure of isolated 15th Fibronectin III domain from human fibronectin
1QO6 2000-01-11 Solution structure of a pair of modules from the gelatin-binding domain of fibronectin
1O9A 2003-05-08 Solution structure of the complex of 1F12F1 from fibronectin with B3 from FnBB from S. dysgalactiae
1J8K 2002-02-06 NMR STRUCTURE OF THE FIBRONECTIN EDA DOMAIN, NMR, 20 STRUCTURES
2N1K 2015-11-11 Structure of the Third Type III Domain from Human Fibronectin
2HA1 2007-04-10 Complex of the first and second type III domains of human Fibronectin in solution
1OWW 2003-10-07 Solution structure of the first type III module of human fibronectin determined by 1H, 15N NMR spectroscopy
2KF5 2009-12-08 Barnase bound to d(CGAC), low pressure
1E8B 2000-10-15 Solution structure of 6F11F22F2, a compact three-module fragment of the gelatin-binding domain of human fibronectin
1BNR 1995-07-31 BARNASE
2KF6 2009-12-08 Barnase bound to d(CGAC) high pressure
2FNB 1998-12-23 NMR STRUCTURE OF THE FIBRONECTIN ED-B DOMAIN, NMR, 20 STRUCTURES
1E88 2000-10-09 Solution structure of 6F11F22F2, a compact three-module fragment of the gelatin-binding domain of human fibronectin
1QGB 1999-12-08 SOLUTION STRUCTURE OF THE N-TERMINAL F1 MODULE PAIR FROM HUMAN FIBRONECTIN
1TTG 1994-01-31 THE THREE-DIMENSIONAL STRUCTURE OF THE TENTH TYPE III MODULE OF FIBRONECTIN: AN INSIGHT INTO RGD-MEDIATED INTERACTIONS
6HNF 2018-10-10 Structure in solution of human fibronectin type III-domain 14
5J6Z 2017-04-12 Structure of anastellin bound to beta-strands A and B from the third type III domain of fibronectin
2MNU 2014-09-24 Backbone and side chain 1H, 13C, and 15N Chemical Shift Assignments for EDB and specific binding aptide
2KF4 2009-12-08 Barnase high pressure structure
2EC3 2008-03-04 Solution structure of the 11th FN1 domain from human Fibronectin 1
2CG7 2007-02-27 1.2 SECOND AND THIRD FIBRONECTIN TYPE I MODULE PAIR (CRYSTAL FORM II).
2C4B 2005-11-21 1.3 Inhibitor cystine knot protein McoEeTI fused to the catalytically inactive barnase mutant H102A
6QNV 2019-02-27 1.4 Fibrinogen-like globe domain of Human Tenascin-C
4LXO 2014-08-06 1.42 Crystal structure of 9,10Fn3-elegantin chimera
2RB8 2007-11-20 1.45 High resolution design of a protein loop
5DC4 2016-03-02 1.48 CRYSTAL STRUCTURE OF MONOBODY AS25/ABL1 SH2 DOMAIN COMPLEX, CRYSTAL A
1A2P 1998-04-29 1.5 BARNASE WILDTYPE STRUCTURE AT 1.5 ANGSTROMS RESOLUTION
2CG6 2007-02-27 1.55 Second and third fibronectin type I module pair (crystal form I).
5DC9 2016-03-02 1.56 CRYSTAL STRUCTURE OF MONOBODY AS25/ABL1 SH2 DOMAIN COMPLEX, CRYSTAL B
2ZA4 2008-05-20 1.58 Crystal Structural Analysis of Barnase-barstar Complex
5N48 2018-02-14 1.6 Structure of Anticalin N9B in complex with extra-domain B of human oncofetal fibronectin
3ZRZ 2011-09-28 1.7 Crystal structure of the second and third fibronectin F1 modules in complex with a fragment of Streptococcus pyogenes SfbI-5
1B20 1998-12-09 1.7 DELETION OF A BURIED SALT-BRIDGE IN BARNASE
3CAL 2008-08-05 1.7 Crystal structure of the second and third fibronectin F1 modules in complex with a fragment of staphylococcus aureus fnbpa-5
1BRN 1994-01-31 1.76 SUBSITE BINDING IN AN RNASE: STRUCTURE OF A BARNASE-TETRANUCLEOTIDE COMPLEX AT 1.76 ANGSTROMS RESOLUTION
2RKY 2008-08-05 1.8 Crystal structure of the fourth and fifth fibronectin F1 modules in complex with a fragment of staphylococcus aureus fnbpa-1
1TEN 1993-10-31 1.8 STRUCTURE OF A FIBRONECTIN TYPE III DOMAIN FROM TENASCIN PHASED BY MAD ANALYSIS OF THE SELENOMETHIONYL PROTEIN
1FNA 1994-04-30 1.8 CRYSTAL STRUCTURE OF THE TENTH TYPE III CELL ADHESION MODULE OF HUMAN FIBRONECTIN
1B2X 1998-12-09 1.8 BARNASE WILDTYPE STRUCTURE AT PH 7.5 FROM A CRYO_COOLED CRYSTAL AT 100K
1B2S 1998-12-08 1.82 STRUCTURAL RESPONSE TO MUTATION AT A PROTEIN-PROTEIN INTERFACE
1BRI 1995-07-10 1.9 BARNASE MUTANT WITH ILE 76 REPLACED BY ALA
1RNB 1992-07-15 1.9 CRYSTAL STRUCTURE OF A BARNASE-D(*GP*C) COMPLEX AT 1.9 ANGSTROMS RESOLUTION
1X1Y 2005-04-26 1.9 Water-mediate interaction at aprotein-protein interface
3KCH 2010-03-09 1.94 Baranase crosslinked by glutaraldehyde
2F5M 2006-04-25 1.95 Cross-linked barnase soaked in bromo-ethanol
2F56 2006-04-25 1.96 Barnase cross-linked with glutaraldehyde soaked in 6M urea
4PZ5 2014-07-02 1.96 Crystal structure of the second and third fibronectin F1 modules in complex with a fragment of BBK32 from Borrelia burgdorferi
1BRJ 1995-07-10 2.0 BARNASE MUTANT WITH ILE 88 REPLACED BY ALA
1BSE 1994-01-31 2.0 CRYSTAL STRUCTURAL ANALYSIS OF MUTATIONS IN THE HYDROPHOBIC CORES OF BARNASE
1BRK 1995-07-10 2.0 BARNASE MUTANT WITH ILE 96 REPLACED BY ALA
1BRS 1994-06-22 2.0 PROTEIN-PROTEIN RECOGNITION: CRYSTAL STRUCTURAL ANALYSIS OF A BARNASE-BARSTAR COMPLEX AT 2.0-A RESOLUTION
1BSC 1994-01-31 2.0 CRYSTAL STRUCTURAL ANALYSIS OF MUTATIONS IN THE HYDROPHOBIC CORES OF BARNASE
1FNF 1996-01-29 2.0 FRAGMENT OF HUMAN FIBRONECTIN ENCOMPASSING TYPE-III REPEATS 7 THROUGH 10
2RKZ 2008-08-05 2.0 Crystal structure of the second and third fibronectin f1 modules in complex with a fragment of staphylococcus aureus fnbpa-1
1BNF 1995-07-10 2.0 BARNASE T70C/S92C DISULFIDE MUTANT
1BRH 1995-07-10 2.0 BARNASE MUTANT WITH LEU 14 REPLACED BY ALA
2CK2 2007-04-10 2.0 Structure of core-swapped mutant of fibronectin
1BSA 1994-01-31 2.0 CRYSTAL STRUCTURAL ANALYSIS OF MUTATIONS IN THE HYDROPHOBIC CORES OF BARNASE
1B21 1998-12-09 2.0 DELETION OF A BURIED SALT BRIDGE IN BARNASE
1BSB 1994-01-31 2.0 CRYSTAL STRUCTURAL ANALYSIS OF MUTATIONS IN THE HYDROPHOBIC CORES OF BARNASE
2RL0 2008-08-05 2.0 Crystal structure of the fourth and fifth fibronectin F1 modules in complex with a fragment of staphylococcus aureus fnbpa-5
2F5W 2006-04-25 2.0 Cross-linked barnase soaked in 3 M thiourea
2GEE 2006-10-17 2.01 Crystal Structure of Human Type III Fibronectin Extradomain B and Domain 8
1B2Z 1998-12-09 2.03 DELETION OF A BURIED SALT BRIDGE IN BARNASE
1BNS 1994-06-22 2.05 STRUCTURAL STUDIES OF BARNASE MUTANTS
1B2U 1998-12-09 2.1 STRUCTURAL RESPONSE TO MUTATION AT A PROTEIN-PROTEIN INTERFACE
1BNG 1995-07-10 2.1 BARNASE S85C/H102C DISULFIDE MUTANT
1BNI 1995-09-15 2.1 BARNASE WILDTYPE STRUCTURE AT PH 6.0
1BNE 1995-07-10 2.1 BARNASE A43C/S80C DISULFIDE MUTANT
3EJH 2009-02-03 2.1 Crystal Structure of the Fibronectin 8-9FnI Domain Pair in Complex with a Type-I Collagen Peptide
1BNJ 1995-09-15 2.1 BARNASE WILDTYPE STRUCTURE AT PH 9.0
1X1W 2005-04-26 2.1 Water-mediate interaction at aprotein-protein interface
2RBL 2007-11-20 2.1 High resolution design of a protein loop
1B27 1998-12-09 2.1 STRUCTURAL RESPONSE TO MUTATION AT A PROTEIN-PROTEIN INTERFACE
2F4Y 2006-04-25 2.15 Barnase cross-linked with glutaraldehyde
3Q3F 2012-01-25 2.17 Engineering Domain-Swapped Binding Interfaces by Mutually Exclusive Folding: Insertion of Ubiquitin into position 103 of Barnase
1BAN 1993-10-31 2.2 THE CONTRIBUTION OF BURIED HYDROGEN BONDS TO PROTEIN STABILITY: THE CRYSTAL STRUCTURES OF TWO BARNASE MUTANTS
1BRG 1994-06-22 2.2 CRYSTALLOGRAPHIC ANALYSIS OF PHE->LEU SUBSTITUTION IN THE HYDROPHOBIC CORE OF BARNASE
1YVS 1999-02-02 2.2 Trimeric domain swapped barnase
1BAO 1993-10-31 2.2 THE CONTRIBUTION OF BURIED HYDROGEN BONDS TO PROTEIN STABILITY: THE CRYSTAL STRUCTURES OF TWO BARNASE MUTANTS
5DC0 2016-03-02 2.23 CRYSTAL STRUCTURE OF MONOBODY GG3/ABL1 SH2 DOMAIN COMPLEX
3DA7 2009-04-14 2.25 A conformationally strained, circular permutant of barnase
1X1U 2005-04-26 2.3 Water-mediate interaction at aprotein-protein interface
1BSD 1994-01-31 2.3 CRYSTAL STRUCTURAL ANALYSIS OF MUTATIONS IN THE HYDROPHOBIC CORES OF BARNASE
4JEG 2013-08-28 2.3 Crystal Structure of Monobody CS1/SHP2 C-SH2 Domain Complex
1X1X 2005-04-26 2.3 Water-mediate interaction at aprotein-protein interface
4JE4 2013-08-28 2.31 Crystal Structure of Monobody NSa1/SHP2 N-SH2 Domain Complex
1B3S 1998-12-09 2.39 STRUCTURAL RESPONSE TO MUTATION AT A PROTEIN-PROTEIN INTERFACE
3R8Q 2012-04-11 2.4 Structure of Fibronectin domain 12-14
3T1W 2012-03-21 2.4 Structure of the four-domain fragment Fn7B89 of oncofetal fibronectin
5DFT 2016-09-14 2.5 Structure of the Eleventh Type III Domain from Human Fibronectin
3M7P 2010-06-23 2.5 Fibronectin fragment
5J7C 2016-08-17 2.54 A picomolar affinity FN3 domain in complex with hen egg-white lysozyme
4GH7 2012-12-26 2.6 Crystal structure of Anticalin N7A in complex with oncofetal fibronectin fragment Fn7B8
1BGS 1994-04-30 2.6 RECOGNITION BETWEEN A BACTERIAL RIBONUCLEASE, BARNASE, AND ITS NATURAL INHIBITOR, BARSTAR
3GXE 2010-04-07 2.6 Complex of a Low Affinity Collagen Site with the Fibronectin 8-9FnI Domain Pair
1FNH 1999-03-16 2.8 CRYSTAL STRUCTURE OF HEPARIN AND INTEGRIN BINDING SEGMENT OF HUMAN FIBRONECTIN
6BRB 2018-12-05 2.82 Novel non-antibody protein scaffold targeting CD40L
2OCF 2007-11-06 2.95 Human estrogen receptor alpha ligand-binding domain in complex with estradiol and the E2#23 FN3 monobody
5N47 2018-02-14 3.0 Structure of Anticalin N7E in complex with the three-domain fragment Fn7B8 of human oncofetal fibronectin
3MQL 2010-08-25 3.0 Crystal structure of the fibronectin 6FnI1-2FnII7FnI fragment
4MMZ 2014-03-26 3.1 Integrin AlphaVBeta3 ectodomain bound to an antagonistic tenth domain of Fibronectin
4MMY 2014-03-26 3.18 Integrin AlphaVBeta3 ectodomain bound to the tenth domain of Fibronectin with the IAKGDWND motif
4MMX 2014-03-26 3.32 Integrin AlphaVBeta3 ectodomain bound to the tenth domain of Fibronectin

Relevant UniProtKB Entries

Percent Identity Matching Chains Protein Accession Entry Name
97.3 Ribonuclease P35078 RN_BACCI
100.0 Ribonuclease P00648 RNBR_BACAM
90.9 Fibronectin Q91400 FINC_NOTVI
92.1 Fibronectin Q28377 FINC_HORSE
94.0 Fibronectin Q28275 FINC_CANLF
100.0 Fibronectin P02751 FINC_HUMAN
100.0 Tenascin P24821 TENA_HUMAN
95.6 Tenascin Q29116 TENA_PIG
96.8 Fibronectin P07589 FINC_BOVIN