SARS-CoV-2 Spike protein and the snake venom proteins, bioinformatics approach. 'Watch the Water' Part 2.
6/21/2022: UPDATE with extremely important interview by Dr. JUDY MIKOVITS at:
http://www.opensourcetruth.com/dr-judy-mikovits-provides-conclusive-scientific-proof-snake-venom-is-connected-to-covid-19/
7/11/2022 : https://covenomseries.com/
Since there are going to be more revelations from Dr. Bryan Ardis about the venoms and SARS-CoV-2 and the Spike proteins, here some update in bioinformatics analysis of the SPike versus venom proteins.
Just a reminder, after Dr. Ardis’ first revelation with Stew Peters, Mike Adams and few others, mentioned in many posts among others also in:
in which some of the snake venom analysis was presented, but since so many bioinformatics coincidences are around the venom proteins and the SARS-CoV-2, here just a small addition, an interesting one. First snakes symbols are really popular in medicine, alone in the WHO logo:
The Neutral phospholipase A2 muscarinic inhibitor from cobra (uniprot entry Q92084 (PA2NA_NAJSP)) is a Ca+2 dependent shredder (meaning hydrolysis) of membrane lipids. It has 4 Ca+2 binding sites and active side involving 2 sections of its amino acid sequence, according to the above uniprot description:
a) DRCCQIH*DN where the His(H stands for histidine) is the 74th active amino acid
b) CDCD*R where the second Asp (D stands for aspartic acid) is the active side
The section binding the Ca+2 ions is the 54-th, 56th and 58th amino acids from the Q92084 entry: YGCY*CG*RG*GS (with the stars after the binding amino acids, where Y stands for tyrosine, G for glycine, C for cysteine and R for arginine). NIH open source bioinformatics software BLAST comparison of the SpiKE with the SnaKE shows a substantial homology between certain sections of the 1273 and 146 long chains of the injected SARS-CoV-2 covid toxin and the snake toxin. Here some examples:
Query 90 YFKTYS 95
YFK YS
Sbjct 200 YFKIYS 205
Query 117 CDCDRLAAIC 126
CD A IC
Sbjct 662 CDIPIGAGIC 671
Query 112 CAAAVCDC 119
C + C C
Sbjct 1236 CMTSCCSC 1243
Query 66 DLDRCCQIHDNCYNEA 81
++DR ++ N NE+
Sbjct 1182 EIDRLNEVAKN-LNES 1196
Query 14 VSPLGASSNRPMPLNLYQFKNMIQCT-VP 41
++P +SN+ LYQ N CT VP
Sbjct 598 ITPGTNTSNQVAV--LYQDVN---CTEVP 621
Query 48 FADYGCYCGRGGSGTPVDDLDRCCQIHDNCY 78
F+ + CY G S T ++ D C+
Sbjct 374 FSTFKCY---GVSPT---------KLNDLCF 392
Query 95 SYEC 98
SYEC
Sbjct 659 SYEC 662
Query 27 LNLYQFKN 34
L+ Y FKN
Sbjct 1152 LDKY-FKN 1158
Query 72 QIHDNCYNEAEKISRCWPYFKTYSYEC 98
Q C AE + SYEC
Sbjct 644 QTRAGCLIGAEHVN--------NSYEC 662
Query 83 KISRCW--PYFKTYSYECSQGTLTCKGGNN 110
K W F YS NN
Sbjct 147 KNNKSWMESEFRVYS-----------SANN 165
and actually many more sections in total over 60% of identities with the SARS-CoV-2 spike and this small snake toxin. In the above homologies one can see the overlaps of the Ca+2 sites and the active sites in particular the one ‘CDCDR’. This now is done by hand software won’t do it:
SYECDIPIGAGICASYQTQTNSPRRARSVASQSIIAYTMSLGAENSVAYSNN spike
SYECSQGTLTCKGGNNACAAAVCDCDR------LAAICFAGAPYNDNNYNID snake
*
The 23rd amino acid from the upper string belonging to SARS-CoV-2 SPIKE is the start of the known Spike furin cleavage site ‘PRRAR’ which overlaps exactly with the string starting at the position 23 (lower string) with CDC followed by the D (aspartic acid) active side of the snake venom protein. The PRRAR from Spike, although not homolog at all, is ‘covered’ by the amino acids ‘CDC DR’ in the venom, when aligned with the starting common tetrapeptide ‘SYEC’. The snakes venom section with the active site:
‘SYECSQGTLTCKGGNNACAAAVCDCD*R------LAAIC’
can be symbolically written as:
xxxCxxxxxxCxxxxxxCxxxxCxC*xxxxxC which translates to:
C-6 residues-C-6residues-C-4residues-C-xCD*R
which makes the Aspartic acid, the active site in ‘D*r’, the first amino acid after the 3x6 residue strings between each cysteine (C symbol).
The second homology section between the covid Spike and the snake phospholipase:
Query 112 CAAAVCDCDRL 119
C + C C +
Sbjct 1236 CMTSCCSCLKG 1243
covers the cysteine rich section of the corona Spike which was known for a long time"^1 that it is responsible for palmitoylation of virus^2 via the membrane anchoring by the cysteine residues. In the snake phospholipase that lipid modification is known to be the vital step in the biosynthesis of voltage-activated sodium channels^3. Modulation of those ion channels by the low frequency electromagnetic fields leads further to effects on the entire nervous system, including brain^4, ^5.
The latest Dr. Ardis interview from the 5th of May 2022 at https://www.brighteon.com/f3af5340-8167-4c19-9a79-6b69f152d472
mentions another venom protein, the PHOSPHOdiESTERASE. There is no sequence of it in uniprot(!??) for the chineses krait snake, thus a short test with Brazilian rattlesnake(P0DQQ4.1 ) shows actually that it is ~63% identical with human Ectonucleotide pyrophosphatase (uniprot O14638). When comparing the snake phosphodiesterase with the covid19 Spike protein, it appears that it has ~36% of identities (that’s huge for ‘unrelated’ proteins), including the AMP binding site, which strangely overlaps the majority of the ACE2 binding site of the spike(!!). Here the BLAST output showing the amino acid sequence alignment of the ACE2 binding site:
Query 235 KINGSYPTIFKNYDKS--IPFEARV-TEVLKWLDLPKAKRPDF
K+ G Y +++ + KS PFE + TE+ + P F
Sbjct 444 KVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGF
Query ---FTL--YIEEPDTTGHKYGP 291
F L Y +P T G Y P
Sbjct NCYFPLQSYGFQP-TNGVGYQP 507
the Query line represents the snake phosphoesterase, the sbjct line the covid19 Spike sequence.
The chinese cobra phosphopdiesterase (A0A2D0TC04) aligns with the Spike in the ACE2 binding site section the following way:
21.6 bits(44) 0.29 Compositional matrix adjust. 9/25(36%) 16/25(64%) 2/25(8%)
Query 234 KINGSYPTIYKVYNKST--PFEARVM-EVLKWLDLPKAKR 256
K+ G+Y +Y+++ KS PFE + E+ + P
Sbjct 444 KVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGV 468
and the AMP nucleotide binding site of the venom protein overlaps with the Spike:
*
Que 283 TTGHKFGPVSG-QVIKSLQMADRTLGMLMEGLKQRNLHNCVNLILLADHGMEAIS
T+G FG + Q+ ++QMA R G+ G+ Q L+ N L+A+ AI
Sbj 883 TSGWTFGAGAALQIPFAMQMAYRFNGI---GVTQNVLYE--NQKLIANQFNSAIG
and *
Query 148 GTH-AKYMRAVYPTKTFVNHYTIVTGLYAETHGIIDNNMYD 187
GTH R Y + T V+G GI++N +YD
Sbjct 1099 GTHWFVTQRNFYEPQIITTDNTFVSGNCDVVIGIVNNTVYD 1139
One special overlap between the Spike and cobra phosphodiesterase is this small peptide:
Query 811 PLSET-LRLKTF 821 cobra phosphodiestearse
PLSET LK+F
Sbjct 295 PLSETKCTLKSF 306 Sars-Cov-2 Spike
which is listed in the Table1 of the publication^6 titled "Linear epitopes of SARS-CoV-2 spike protein elicit neutralizing antibodies in COVID-19 patients",
with the line from this table:
50 S1-50 295 PLSETKCTLKSF 306
showing it also in Fig.3. with IgM responses against peptides derived from spike protein.
A 2015 publication^7 titled “Venomous snake bites: clinical diagnosis and
treatment“ contains the entire list of enzymes contained in venoms, for example: non-hemorrhagic metalloproteinase, HR1, HR2, Phospholipase A2, TAME esterase, L-amino acid oxidase, Hyaluronidase, Phosphodiesterase, Phosphomonoesterase, ATPase, 5′-nucleotidase, Endonuclease, NAD-nucleosidase, Alginine ester hydrolase,
Thrombin-like enzyme, Endopeptidase, Bradykinin-releasing enzyme. Just taking one more from that list, for example the Zinc metalloproteinase-disintegrin-like HR1b (uniprot code P20164). Spike contains 40% of identities in its sequence with that enzyme! Among the patterns is a specific motif ‘GKIQDSLSSTAS‘:
Query 107 GRIQNDADSTAS 118
G+IQ+ STAS
Sbjct 932 GKIQDSLSSTAS 943
again defined as S2-42 in the list of the linear epitopes of the SARS-CoV2 Spike in the ^6 publication. There are countless more overlaps of those epitopes within the aligned segments between the venom and the Spike, like :
Query 352 GGFPCIMSPMISDP--PSE 368
GGF S ++ DP PS+
Sbjct 798 GGFN--FSQILPDPSKPSK 814
or
Query 438 SWVKCESGECCDQCRFR-TAGTECRAAESECDIP 470
+W +G Q R G E ECDIP
Sbjct 632 TWRVYSTGSNVFQTRAGCLIGAEHVNNSYECDIP 665
containing another specific venom D/ECD-tripeptide..
This implies that the old patented coronaviruses, highly homolog with SARS-CoV-2, from the very begin around 2003 were already developed based possibly on the snake phosphodiesterase and other sequences from venom proteins. A comparison with identical BLAST parameters between Spike and the human version of phosphodiesterase gives only ~23% of identities with the ACE2 binding site now looking following way:
16.3 bits(30) 13 Compositional matrix adjust. 9/26(35%) 13/26(50%) 2/26(7%)
Query 278 INGSFPSIYMPYNGS--VPFEERIST 301
+ G + +Y + S PFE IST
Sbjct 445 VGGNYNYLYRLFRKSNLKPFERDIST 470
The next SARS-CoV-2 Spike comparison will be for another animal kingdom protein, from the listed publication^7. This will be edited here soon:)
It does not look actually as a plain coincidence, that’s for sure, but since in a plain sight, everyone can see it and get convinced that there is something to Dr. Ardis’ theories.
And if you get this far, please leave any comment, corrections, suggestions. THANK YOU.
Literature:
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7161805/pdf/BOC-104-493.pdf M. Veyt “Palmitoylation of virus proteins” Biol. Cell (2012) 104, 493–515 DOI: 10.1111/boc.201200006
Chad M. Petit e al. “Palmitoylation of the cysteine-rich endodomain of the SARS–coronavirus spike glycoprotein is important for spike-mediated cell fusion”. Virology 360 (2007) 264–274
https://pubmed.ncbi.nlm.nih.gov/22123950/ F.Bosmans et al. “Palmitoylation influences the function and pharmacology of sodium channels“ Proc Natl Acad Sci U S A 2011 Dec 13;108(50):20213-8. doi: 10.1073/pnas.1108497108.
Yu Zheng et al. “Effects of modulation on sodium and potassium channel currents by extremely low frequency electromagnetic fields stimulation on hippocampal CA1 pyramidal cells” Electromagn Biol Med. 2021 Apr 3;40(2):274-285.
https://nyaspubs.onlinelibrary.wiley.com/doi/epdf/10.1111/nyas.14597 F. Bertagna et al. “Effects of electromagnetic fields on neuronal ion channels: a systematic review” Ann. N.Y. Acad. Sci. 1499 (2021) 82–103.
Yang Li et al. “Linear epitopes of SARS-CoV-2 spike protein elicit neutralizing antibodies in COVID-19 patients“ MedRxiv preprint 06.07.202.
Toru Hifumi et al. “Venomous snake bites: clinical diagnosis and treatment” Journal of Intensive Care (2015) 3:16.
SARS-CoV-2 Spike protein and the snake venom proteins, bioinformatics approach. 'Watch the Water' Part 2.
as the coincidences multiply, the probability of it being a coincidence decreases...
... CDC DR = they are snakes.