Macromolecule Insights - Protein Bioinformatics Analysis

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The Caveolin Protein

Sequence Alignment of the Caveolin Protein (Homo sapiens) (with Clustalw)^a

Isoform Sequence Alignment of Caveolin

caveolin2a&b -MGLETEKADVQLFMD-------------DDSYSHHSGLEYADPEKFADSDQDRDPHRLN 46
caveolin2c   -MGLETEKADVQLFMD-------------DDSYSHHSGLEYADPEKFADSDQDRDPHRLN 46
caveolin1    MSGGKYVDSEGHLYTVPIREQGNIYKPNNKAMADELSEKQVYDAHTKEIDLVNRDPKHLN 60
caveolin3    MMAEEHTD---------------------------LEAQIVKDIHCKEIDLVNRDPKNIN 33
               . :  .                            .     * .    .  :***:.:*

caveolin2a&b -SHLKLGFEDVIAEPVTTHSFDKVWICSHALFEISKYVMYKFLTVFLAIPLAFIAGILFA 105
caveolin2c   -SHLKD-FNAFCKD--------------------------------LPNGSAFSADNMEE 72
caveolin1    DDVVKIDFEDVIAEPEGTHSFDGIWKASFTTFTVTKYWFYRLLSALFGIPMALIWGIYFA 120
caveolin3    EDIVKVDFEDVIAEPVGTYSFDGVWKVSYTTFTVSKYWCYRLLSTLLGVPLALLWGFLFA 93
              . :*  *: .  :                                :    *:  .    

caveolin2a&b TLSCLHIWILMPFVKTCLMVLPSVQTIWKSVTDVIIAPLCTSVGRCFSSVSLQLSQD- 162
caveolin2c   CDRCYHCSIVYERRTMLLFCQPATEPGLNTWTPGLEIGIL------------------ 112
caveolin1    ILSFLHIWAVVPCIKSFLIEIQCISRVYSIYVHTVCDPLFEAVGKIFSNVRINLQKEI 178
caveolin3    CISFCHIWAVVPCIKSYLIEIQCISHIYSLCIRTFCNPLFAALGQVCSSIKVVLRKEV 151
                  *   :    .  *:   . .   .     .   :                   

Accession numbers of the caveolin sequences used in the protein sequence alignment:  NP_001744 - caveolin 1; NP_001224 - caveolin 2 isoform a and b; NP_937855 - caveolin 2 isoform c; NP_001225 - caveolin 3

Predicted General Properties of the Caveolin 1 Protein  (Homo sapiens) - Primary Sequence Analysis (with ProtParam)^b

Number of amino acids: 178 

Molecular weight: 20471.6 

Theoretical pI: 5.64

Total number of negatively charged residues (Asp + Glu): 22

Total number of positively charged residues (Arg + Lys): 17

Atomic composition: Carbon C 948 Hydrogen H 1440 Nitrogen N 232 Oxygen O 262 Sulfur S 6 Formula: C₉₄₈H₁₄₄₀N₂₃₂O₂₆₂S₆

Total number of atoms: 2888

Extinction coefficients: Extinction coefficients are in units of M^-1 cm^-1, at 280 nm measured in water. Ext. coefficient 35535 Abs 0.1% (=1 g/l) 1.736, assuming ALL Cys residues appear as half cystines Ext. coefficient 35410 Abs 0.1% (=1 g/l) 1.730, assuming NO Cys residues appear as half cystines

Estimated half-life: The N-terminal of the sequence considered is M (Met). The estimated half-life is: 30 hours (mammalian reticulocytes, in vitro). >20 hours (yeast, in vivo). >10 hours (Escherichia coli, in vivo).

Instability index: The instability index (II) is computed to be 31.54 This classifies the protein as stable.

Aliphatic index: 100.17

Grand average of hydropathicity (GRAVY): 0.064

Bioinformatics References

^a Higgins D., Thompson J., Gibson T. Thompson J. D., Higgins D. G., Gibson T. J.(1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting,position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.

^b Gasteiger E., Hoogland C., Gattiker A., Duvaud S., Wilkins M.R., Appel R.D., Bairoch A.; Protein Identification and Analysis Tools on the ExPASy Server;
(In) John M. Walker (ed): The Proteomics Protocols Handbook, Humana Press (2005). pp. 571-607  Full text - Copyright Humana Press.