Thermodynamics of ubiquitin unfolding.
Abstract
The energetics of ubiquitin unfolding have been studied using differential scanning microcalorimetry. For the first time it has been shown directly that the enthalpy of protein unfolding is a nonlinear function of temperature. Thermodynamic parameters of ubiquitin unfolding were correlated with the structure of the protein. The enthalpy of hydrogen bonding in ubiquitin was calculated and compared to that obtained for other proteins. It appears that the energy of hydrogen bonding correlates with the average length of the hydrogen bond in a given protein structure. Study holds ProTherm entries: 2419, 2420, 2421, 2422, 2423, 2424, 2425, 2426 Extra Details: microcalorimetry; heat capacity; enthalpy; hydrogen bonding
Submission Details
ID: 2W2ZqP6h
Submitter: Connie Wang
Submission Date: April 24, 2018, 8:18 p.m.
Version: 1
Publication Details
Wintrode PL;Makhatadze GI;Privalov PL,Proteins (1994) Thermodynamics of ubiquitin unfolding. PMID:8202465Additional Information
Study Summary
Structure view and single mutant data analysis
Study data
| 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 |
|---|---|---|---|
| 6ZVK | 2020-07-24T00:00:00+0000 | 3.49 | The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism |
| 5OHM | 2017-07-17T00:00:00+0000 | 3.8 | K33-specific affimer bound to K33 diUb |
| 5L9U | 2016-06-11T00:00:00+0000 | 6.4 | Model of human Anaphase-promoting complex/Cyclosome (APC/C-CDH1) with a cross linked Ubiquitin variant-substrate-UBE2C (UBCH10) complex representing key features of multiubiquitination |
| 6JWI | 2019-04-20T00:00:00+0000 | 2.55 | Yeast Npl4 in complex with Lys48-linked diubiquitin |
| 2K39 | 2008-04-25T00:00:00+0000 | 0 | Recognition dynamics up to microseconds revealed from RDC derived ubiquitin ensemble in solution |
| 2KDE | 2009-01-06T00:00:00+0000 | 0 | NMR structure of major S5a (196-306):K48 linked diubiquitin species |
| 3AI5 | 2010-05-10T00:00:00+0000 | 1.4 | Crystal structure of yeast enhanced green fluorescent protein-ubiquitin fusion protein |
| 3J7O | 2014-08-01T00:00:00+0000 | 3.5 | Structure of the mammalian 60S ribosomal subunit |
| 1E0Q | 2000-04-05T00:00:00+0000 | 0 | Mutant Peptide from the first N-terminal 17 amino-acid of Ubiquitin |
| 3J7P | 2014-08-01T00:00:00+0000 | 3.5 | Structure of the 80S mammalian ribosome bound to eEF2 |
Relevant UniProtKB Entries
| Percent Identity | Matching Chains | Protein | Accession | Entry Name |
|---|---|---|---|---|
| 97.5 | Polyubiquitin-C | P31753 | RS27A_ASPOF | |
| 100.0 | Polyubiquitin-C | P84589 | UBIQ_LUMTE | |
| 95.7 | Polyubiquitin-C | P59272 | RS27A_DAUCA | |
| 95.8 | Polyubiquitin-C | P0C8R3 | RS27B_SCHPO | |
| 95.8 | Polyubiquitin-C | P0C016 | RS27A_SCHPO | |
| 95.8 | Polyubiquitin-C | P27923 | RS27A_MAIZE | |
| 95.8 | Polyubiquitin-C | P47905 | RS27A_LUPAL | |
| 95.8 | Polyubiquitin-C | P0CG87 | RS272_HORVU | |
| 95.8 | Polyubiquitin-C | P0CG86 | RS271_HORVU | |
| 95.8 | Polyubiquitin-C | P59233 | R27AC_ARATH | |
| 95.8 | Polyubiquitin-C | P51431 | R27AB_ORYSJ | |
| 95.8 | Polyubiquitin-C | P59232 | R27AB_ARATH | |
| 95.8 | Polyubiquitin-C | Q9ARZ9 | R27AA_ORYSJ | |
| 95.9 | Polyubiquitin-C | P14797 | RS27A_DICDI | |
| 96.0 | Polyubiquitin-C | P14799 | RS27A_NEUCR | |
| 94.7 | Polyubiquitin-C | P69200 | RL40_LEITA | |
| 93.4 | Polyubiquitin-C | P23324 | UBIQP_EUPEU | |
| 96.0 | Polyubiquitin-C | P05759 | RS31_YEAST | |
| 96.0 | Polyubiquitin-C | P69061 | RS27A_KLULA | |
| 94.7 | Polyubiquitin-C | P21899 | RL40_TRYBB | |
| 93.4 | Polyubiquitin-C | Q9FHQ6 | UBQ9_ARATH | |
| 94.7 | Polyubiquitin-C | Q3E7K8 | UBQ12_ARATH | |
| 96.1 | Polyubiquitin-C | P0CG70 | UBI4P_NEUCR | |
| 96.1 | Polyubiquitin-C | P14795 | RL40_TRYCR | |
| 96.1 | Polyubiquitin-C | P0C224 | RL40_NEUCR | |
| 96.1 | Polyubiquitin-C | P49633 | RL40_ACACA | |
| 96.1 | Polyubiquitin-C | P0CH27 | RL402_TRYCR | |
| 94.7 | Polyubiquitin-C | P22589 | UBIQP_PHYIN | |
| 94.7 | Polyubiquitin-C | P42739 | UBIQP_ACEPE | |
| 94.7 | Polyubiquitin-C | P0C032 | RUB3_ORYSJ | |
| 96.1 | Polyubiquitin-C | P0CH32 | UBQ4_ARATH | |
| 96.1 | Polyubiquitin-C | Q58G87 | UBQ3_ORYSJ | |
| 96.1 | Polyubiquitin-C | Q1EC66 | UBQ3_ARATH | |
| 96.1 | Polyubiquitin-C | Q3E7T8 | UBQ14_ARATH | |
| 96.1 | Polyubiquitin-C | P0CH33 | UBQ11_ARATH | |
| 96.1 | Polyubiquitin-C | Q8H159 | UBQ10_ARATH | |
| 96.1 | Polyubiquitin-C | P69326 | UBIQ_WHEAT | |
| 96.1 | Polyubiquitin-C | P69317 | UBIQ_LUPPO | |
| 96.1 | Polyubiquitin-C | P69313 | UBIQ_HELAN | |
| 96.1 | Polyubiquitin-C | P69310 | UBIQ_AVESA | |
| 96.1 | Polyubiquitin-C | P69325 | UBIQP_SOYBN | |
| 96.1 | Polyubiquitin-C | P69322 | UBIQP_PEA | |
| 96.1 | Polyubiquitin-C | P69315 | UBIQP_LINUS | |
| 96.1 | Polyubiquitin-C | P0CG83 | UBIQP_HORVU | |
| 96.1 | Polyubiquitin-C | P69309 | UBIQP_AVEFA | |
| 97.4 | Polyubiquitin-C | P0CG88 | UBIQJ_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG80 | UBIQI_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG81 | UBIQH_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG79 | UBIQG_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG78 | UBIQF_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG77 | UBIQD_DICDI | |
| 97.4 | Polyubiquitin-C | P0CG76 | UBIQA_DICDI | |
| 96.1 | Polyubiquitin-C | P0CG63 | UBI4P_YEAST | |
| 96.1 | Polyubiquitin-C | P0CG72 | UBI4P_SCHPO | |
| 96.1 | Polyubiquitin-C | P0CG84 | UBI4P_NICSY | |
| 96.1 | Polyubiquitin-C | P0CG75 | UBI4P_KLULA | |
| 96.1 | Polyubiquitin-C | P0CG74 | UBI4P_CANAX | |
| 96.1 | Polyubiquitin-C | P0CH05 | UBI2P_PETCR | |
| 96.1 | Polyubiquitin-C | P0CH04 | UBI1P_PETCR | |
| 96.1 | Polyubiquitin-C | P0CG85 | UBI1P_NICSY | |
| 96.1 | Polyubiquitin-C | P0CG73 | UBI1P_CANAX | |
| 96.1 | Polyubiquitin-C | P0C031 | RUB2_ORYSJ | |
| 96.1 | Polyubiquitin-C | Q8RUC6 | RUB2_ARATH | |
| 96.1 | Polyubiquitin-C | P0C030 | RUB1_ORYSJ | |
| 96.1 | Polyubiquitin-C | P0C073 | RUB1_DESAN | |
| 96.1 | Polyubiquitin-C | Q9SHE7 | RUB1_ARATH | |
| 96.1 | Polyubiquitin-C | P62981 | RS27A_SOLTU | |
| 96.1 | Polyubiquitin-C | P62980 | RS27A_SOLLC | |
| 96.1 | Polyubiquitin-C | P49636 | RL40_NICSY | |
| 97.4 | Polyubiquitin-C | P14794 | RL40_DICDI | |
| 96.1 | Polyubiquitin-C | P40909 | RL40_CRYNJ | |
| 96.1 | Polyubiquitin-C | P51423 | RL40_BRARP | |
| 96.1 | Polyubiquitin-C | P0CH09 | RL40B_YEAST | |
| 96.1 | Polyubiquitin-C | P0CH35 | RL40B_ORYSJ | |
| 96.1 | Polyubiquitin-C | Q42202 | RL40B_ARATH | |
| 96.1 | Polyubiquitin-C | P0CH08 | RL40A_YEAST | |
| 96.1 | Polyubiquitin-C | P0CH34 | RL40A_ORYSJ | |
| 96.1 | Polyubiquitin-C | B9DHA6 | RL40A_ARATH | |
| 96.1 | Polyubiquitin-C | P0CH07 | RL402_SCHPO | |
| 96.1 | Polyubiquitin-C | P0CH06 | RL401_SCHPO | |
| 96.1 | Polyubiquitin-C | P59271 | R27AA_ARATH | |
| 97.4 | Polyubiquitin-C | P42740 | UBIQP_AGLNE | |
| 97.4 | Polyubiquitin-C | P19848 | UBIQ_COPCO | |
| 97.4 | Polyubiquitin-C | P0CG82 | UBIQP_TETPY | |
| 97.4 | Polyubiquitin-C | P0DJ25 | RL40_TETTS | |
| 97.4 | Polyubiquitin-C | P33190 | RL40_TETPY | |
| 97.4 | Polyubiquitin-C | P0CH10 | RL403_CHLRE | |
| 97.4 | Polyubiquitin-C | P0CH11 | RL401_CHLRE | |
| 97.4 | Polyubiquitin-C | P69201 | RL40_LEIMA | |
| 98.7 | Polyubiquitin-C | P59669 | UBIQP_GEOCY | |
| 98.7 | Polyubiquitin-C | P0CG71 | UBIQ1_CAEEL | |
| 98.7 | Polyubiquitin-C | P49632 | RL40_CAEEL | |
| 100.0 | Polyubiquitin-C | P62982 | RS27A_RAT | |
| 100.0 | Polyubiquitin-C | P62983 | RS27A_MOUSE | |
| 100.0 | Polyubiquitin-C | P68200 | RS27A_ICTPU | |
| 100.0 | Polyubiquitin-C | P62979 | RS27A_HUMAN | |
| 100.0 | Polyubiquitin-C | P79781 | RS27A_CHICK | |
| 100.0 | Polyubiquitin-C | P62978 | RS27A_CAVPO | |
| 100.0 | Polyubiquitin-C | P62992 | RS27A_BOVIN | |
| 98.7 | Polyubiquitin-C | Q8SWD4 | UBIQ_ENCCU | |
| 98.7 | Polyubiquitin-C | P23398 | UBIQP_STRPU | |
| 98.7 | Polyubiquitin-C | P46575 | RL40_EIMBO | |
| 100.0 | Polyubiquitin-C | P62975 | UBIQ_RABIT | |
| 100.0 | Polyubiquitin-C | P68197 | UBIQ_CERCA | |
| 100.0 | Polyubiquitin-C | Q865C5 | UBIQ_CAMDR | |
| 100.0 | Polyubiquitin-C | P62972 | UBIQP_XENLA | |
| 100.0 | Polyubiquitin-C | P0CG69 | UBIQP_DROME | |
| 100.0 | Polyubiquitin-C | P62976 | UBIQP_CRIGR | |
| 100.0 | Polyubiquitin-C | Q63429 | UBC_RAT | |
| 100.0 | Polyubiquitin-C | P0CG61 | UBC_PONPY | |
| 100.0 | Polyubiquitin-C | P0CG68 | UBC_PIG | |
| 100.0 | Polyubiquitin-C | P0CG64 | UBC_PANTR | |
| 100.0 | Polyubiquitin-C | P0CG50 | UBC_MOUSE | |
| 100.0 | Polyubiquitin-C | P0CG48 | UBC_HUMAN | |
| 100.0 | Polyubiquitin-C | P0CG66 | UBC_GORGO | |
| 100.0 | Polyubiquitin-C | P0CH28 | UBC_BOVIN | |
| 100.0 | Polyubiquitin-C | P0CG55 | UBB_SHEEP | |
| 100.0 | Polyubiquitin-C | P0CG51 | UBB_RAT | |
| 100.0 | Polyubiquitin-C | P0CG60 | UBB_PONPY | |
| 100.0 | Polyubiquitin-C | P0CG65 | UBB_PANTR | |
| 100.0 | Polyubiquitin-C | P0CG49 | UBB_MOUSE | |
| 100.0 | Polyubiquitin-C | P0CG47 | UBB_HUMAN | |
| 100.0 | Polyubiquitin-C | Q8MKD1 | UBB_HORSE | |
| 100.0 | Polyubiquitin-C | P0CG67 | UBB_GORGO | |
| 100.0 | Polyubiquitin-C | P0CG62 | UBB_CHICK | |
| 100.0 | Polyubiquitin-C | P0CG54 | UBB_CAVPO | |
| 100.0 | Polyubiquitin-C | P0CG53 | UBB_BOVIN | |
| 100.0 | Polyubiquitin-C | P68203 | RS27A_SPOFR | |
| 100.0 | Polyubiquitin-C | P68202 | RS27A_PLUXY | |
| 100.0 | Polyubiquitin-C | P29504 | RS27A_MANSE | |
| 100.0 | Polyubiquitin-C | P15357 | RS27A_DROME | |
| 100.0 | Polyubiquitin-C | P0C276 | RL40_SHEEP | |
| 100.0 | Polyubiquitin-C | P62986 | RL40_RAT | |
| 100.0 | Polyubiquitin-C | P0C275 | RL40_PONPY | |
| 100.0 | Polyubiquitin-C | P63053 | RL40_PIG | |
| 100.0 | Polyubiquitin-C | P68205 | RL40_OPHHA | |
| 100.0 | Polyubiquitin-C | P62984 | RL40_MOUSE | |
| 100.0 | Polyubiquitin-C | P0C273 | RL40_MACFA | |
| 100.0 | Polyubiquitin-C | P62987 | RL40_HUMAN | |
| 100.0 | Polyubiquitin-C | P63052 | RL40_FELCA | |
| 100.0 | Polyubiquitin-C | P18101 | RL40_DROME | |
| 100.0 | Polyubiquitin-C | P63050 | RL40_CANLF | |
| 100.0 | Polyubiquitin-C | P63048 | RL40_BOVIN |