Sequence Alignment of the Cyclooxgyenase (COX) Protein (Homo sapiens) (with Clustalw)a
Isoform Sequence Alignment
of Cyclooxygenase
COX-1.1 -MSRSLLLWFLLFLLLLPPLPVLLADPGAPTPVNPCCYYPCQHQGICVRFGLDRYQCDCT 59
COX-1.2 -MSRSLLLWFLLFLLLLPPLPVLLADPGAPTPVNPCCYYPCQHQGICVRFGLDRYQCDCT 59
COX-2 MLARALLLCAVLALS---------------HTANPCCSHPCQNRGVCMSVGFDQYKCDCT 45
::*:*** :* * ..**** :***::*:*: .*:*:*:****
COX-1.1 RTGYSGPNCTIPGLWTWLRNSLRPSPSFTHFLLTHGRWFWEFVN-ATFIREMLMRLVLTV 118
COX-1.2 RTGYSGPNCTIPGLWTWLRNSLRPSPSFTHFLLTHGRWFWEFVN-ATFIREMLMRLVLTV 118
COX-2 RTGFYGENCSTPEFLTRIKLFLKPTPNTVHYILTHFKGFWNVVNNIPFLRNAIMSYVLTS 105
***: * **: * : * :: *:*:*. .*::*** : **:.** .*:*: :* ***
COX-1.1 RSNLIPSPPTYNSAHDYISWESFSNVSYYTRILPSVPKDCPTPMGTKGKKQLPDAQLLAR 178
COX-1.2 RSNLIPSPPTYNSAHDYISWESFSNVSYYTRILPSVPKDCPTPMGTKGKKQLPDAQLLAR 178
COX-2 RSHLIDSPPTYNADYGYKSWEAFSNLSYYTRALPPVPDDCPTPLGVKGKKQLPDSNEIVE 165
**:** ******: :.* ***:***:***** **.**.*****:*.********:: :..
COX-1.1 RFLLRRKFIPDPQGTNLMFAFFAQHFTHQFFKTSGKMGPGFTKALGHGVDLGHIYGDNLE 238
COX-1.2 RFLLRRKFIPDPQGTNLMFAFFAQHFTHQFFKTSGKMGPGFTKALGHGVDLGHIYGDNLE 238
COX-2 KLLLRRKFIPDPQGSNMMFAFFAQHFTHQFFKTDHKRGPAFTNGLGHGVDLNHIYGETLA 225
::************:*:****************. * **.**:.*******.****:.*
COX-1.1 RQYQLRLFKDGKLKYQVLDGEMYPPSVEEAPVLMHYPRGIPPQSQMAVGQEVFGLLPGLM 298
COX-1.2 RQYQLRLFKDGKLKYQVLDGEMYPPSVEEAPVLMHYPRGIPPQSQMAVGQEVFGLLPGLM 298
COX-2 RQRKLRLFKDGKMKYQIIDGEMYPPTVKDTQAEMIYPPQVPEHLRFAVGQEVFGLVPGLM 285
** :********:***::*******:*::: . * ** :* : ::*********:****
COX-1.1 LYATLWLREHNRVCDLLKAEHPTWGDEQLFQTTRLILIGETIKIVIEEYVQQLSGYFLQL 358
COX-1.2 LYATLWLREHNRVCDLLKAEHPTWGDEQLFQTTRLILIGETIKIVIEEYVQQLSGYFLQL 358
COX-2 MYATIWLREHNRVCDVLKQEHPEWGDEQLFQTSRLILIGETIKIVIEDYVQHLSGYHFKL 345
:***:**********:** *** *********:**************:***:****.::*
COX-1.1 KFDPELLFGVQFQYRNRIAMEFNHLYHWHPLMPDSFKVGSQEYSYEQFLFNTSMLVDYGV 418
COX-1.2 KFDPELLFGVQFQYRNRIAMEFNHLYHWHPLMPDSFKIG--------------------- 397
COX-2 KFDPELLFNKQFQYQNRIAAEFNTLYHWHPLLPDTFQIHDQKYNYQQFIYNNSILLEHGI 405
********. ****:**** *** *******:**:*::
COX-1.1 EALVDAFSRQIAGRIGGGRNMDHHILHVAVDVIRESREMRLQPFNEYRKRFGMKPYTSFQ 478
COX-1.2 ----------------GGRNMDHHILHVAVDVIRESREMRLQPFNEYRKRFGMKPYTSFQ 441
COX-2 TQFVESFTRQIAGRVAGGRNVPPAVQKVSQASIDQSRQMKYQSFNEYRKRFMLKPYESFE 465
****: : :*: * :**:*: *.******** :*** **:
COX-1.1 ELVGEKEMAAELEELYGDIDALEFYPGLLLEKCHPNSIFGESMIEIGAPFSLKGLLGNPI 538
COX-1.2 ELVGEKEMAAELEELYGDIDALEFYPGLLLEKCHPNSIFGESMIEIGAPFSLKGLLGNPI 501
COX-2 ELTGEKEMSAELEALYGDIDAVELYPALLVEKPRPDAIFGETMVEVGAPFSLKGLMGNVI 525
**.*****:**** *******:*:**.**:** :*::****:*:*:*********:** *
COX-1.1 CSPEYWKPSTFGGEVGFNIVKTATLKKLVCLNTKTCPYVSFRVPD----------AS--- 585
COX-1.2 CSPEYWKPSTFGGEVGFNIVKTATLKKLVCLNTKTCPYVSFRVPD----------AS--- 548
COX-2 CSPAYWKPSTFGGEVGFQIINTASIQSLICNNVKGCPFTSFSVPDPELIKTVTINASSSR 585
*** *************:*::**:::.*:* *.* **:.** *** **
COX-1.1 ---QDDGPAVERP--STEL 599
COX-1.2 ---QDDGPAVERP--STEL 562
COX-2 SGLDDINPTVLLKERSTEL 604
:* .*:* ****
Accession numbers of the cyclooxygenase sequences used in the protein sequence alignment: NP_000953 prostaglandin-endoperoxide synthase 1
isoform 1 (COX-1.1) ; NP_542158 prostaglandin-endoperoxide synthase 1 isoform 2 (COX-1.2);
NP_000954 prostaglandin-endoperoxide synthase 2 (COX-2)
Predicted General Properties of the Cyclooxygenase (COX) 1.1 Protein (Homo sapiens) - Primary Sequence Analysis (with ProtParam)b
Number of amino acids: 599
Molecular weight: 68686.3
Theoretical pI: 6.81
Total number of negatively charged residues (Asp + Glu): 60
Total number of positively charged residues (Arg + Lys): 58
Atomic composition: Carbon C 3144 Hydrogen H 4781 Nitrogen N 815 Oxygen O 856 Sulfur S 31
Formula: C3144H4781N815O856S31
Total number of atoms: 9627
Extinction coefficients: Extinction coefficients are in units of M-1 cm-1, at 280 nm measured in water. Ext. coefficient 95980 Abs 0.1% (=1 g/l) 1.397, assuming ALL Cys residues appear as half cystines Ext. coefficient 95230 Abs 0.1% (=1 g/l) 1.386, 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 44.50 This classifies the protein as unstable.
Aliphatic index: 84.12
Grand average of hydropathicity (GRAVY): -0.181
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.