HLA-DP, APCs and large infections' antigen (digested then presented)

HLA-DP are the HLAs of Antigen Presenting Cells and exist on the plasma membrane surface where they interact with large infections

HLA-DP and transplants
https://www.ncbi.nlm.nih.gov/pubmed/16340798

HLA-DP3 and stem cells
https://www.ncbi.nlm.nih.gov/pubmed/23619468

This page is likely to change...hypotheses are not proven.


HLA-DP1 and E.coli or spirochetes (glycoprotein coats?)

HLA-DPw1 and Celiac (e.coli)
https://www.ncbi.nlm.nih.gov/pubmed/1971269


HLA-DP A1 and h.pylori
https://www.ncbi.nlm.nih.gov/pubmed/10514120

e.coli and glycoproteins
https://www.researchgate.net/publication/10811116_Bacterial_glycoproteins_Functions_biosynthesis_and_applications

spirochetes and glycoprotein coat
http://www.lymeneteurope.org/info/the-complexities-of-lyme-disease

viruses and glycoprotein coats: hepatitis B and ebola

Hepatitis B and glycoprotein coats
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC20001/

HLA-DpA1 and Hepatitis B
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3308944/

Ebola and glycoproteins
http://jvi.asm.org/content/89/2/1205.full

HLA-DPA1 and Ebola
https://in-silico-pharmacology.springeropen.com/articles/10.1186/s40203-015-0011-4



HLA-DP2 and fungal infections with the heavy metals

Mycorrhiza fungus collects heavy metals protecting the roots of plants.  Could aspergillus and candida be doing the same thing? grabbing and holding on to heavy metals?

HLA-DP? and Candida
http://ard.bmj.com/content/50/10/697.full.pdf

HLA-DP and aspergillus
https://idsa.confex.com/idsa/2010/webprogram/Paper5035.html

HLA-DP and Sjogren's
https://www.ncbi.nlm.nih.gov/pubmed/8485911

HLA- DP and SLE
http://www.tandfonline.com/doi/abs/10.3109/08916939009002976

Benzene/armomatic amino acid rings and candida?

https://books.google.com/books?id=1CvTBlGBicwC&pg=PA422&lpg=PA422&dq=aromatic+rings+candida&source=bl&ots=WNXjEofCLZ&sig=1FZWMuh8auO8HVS_9zTnxm0tG5g&hl=en&sa=X&ved=0ahUKEwjEnfWg8svQAhVmj1QKHXfpAVYQ6AEIKzAD#v=onepage&q=aromatic%20rings%20candida&f=false

beryllium and benzene
https://www.ncbi.nlm.nih.gov/pubmed/24336592

HLA-DP2 and benzene/aromatic amino acid rings?
http://bmcstructbiol.biomedcentral.com/articles/10.1186/1472-6807-11-32

HLA-DP2 and beryllium disease
https://www.ncbi.nlm.nih.gov/pubmed/24995984

EBV and HLA-DP
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC111730/

HLA-DP2 and viruses like CMV
https://www.ncbi.nlm.nih.gov/pubmed/22797815

heavy metals can bind estrogen receptors so perhaps the HLA-DP2 can bind the antigen of the herpes viruses ( the part that attempts to bind the estrogen receptors)

Heavy metals and estrogen receptors
https://www.ncbi.nlm.nih.gov/pubmed/10770491
https://www.ncbi.nlm.nih.gov/pubmed/12746304

HLA-DP3 and mycoplasmas  (phospholipids?)

Mycoplasmas have simple phospholipid membranes.

mycoplasmas and glycerophospholipids GG and CL
https://www.hindawi.com/journals/jl/2012/640762/

The autoimmune diseases associated with mycoplasmas also have associations with HLA-DP

HLA-DPw3 and Rheumatoid arthritis
https://www.ncbi.nlm.nih.gov/pubmed/3259737

HLA-DP3 and type one diabetes or anti-phospholipid syndrome

Graves and HLA-dp
https://www.ncbi.nlm.nih.gov/pubmed/3120348

HLA-DP and cervical cancer (are these HLA-DP3?)
https://www.ncbi.nlm.nih.gov/pubmed/26711785
https://www.ncbi.nlm.nih.gov/pubmed/23428460

Note that HPV which causes cervical cancer has a phospholipid binding protein on it's capsid surface, Do they bind and drag phospholipids around with them?


HLA-DP4 and staph or Toxoplasma (Hemagglutinin which binds mucin)

HLA-DP4 is the most common HLA group II...60% of the world's population
https://www.ncbi.nlm.nih.gov/pubmed/12471126

HLA-DP4 's binding region is similar to HLA-DP2 which binds heavy metals (aromatic rings)

tyrosine corners of staph and flu's hemagglutin
http://www.sbb.duke.edu/downloads/622/files/1994_Hemmingsen_TyrCorner_ProSci.pdf

tyrosine and sialic bind ?

HLA-DP4 recognizes hemagglutinin
http://jvi.asm.org/content/70/7/4787.short

Hemagglutinin binds the sialic acid of mucin
https://www.ncbi.nlm.nih.gov/pubmed/24233973

staph binds to mucin
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC173761/

t.gondii and mucin binding
http://grantome.com/grant/NIH/R01-AI095094-01A1

The heart disease group of T. cruzi is connected to DPB1.04
https://www.ncbi.nlm.nih.gov/pubmed/10689123

HLA-DP and staph
https://www.ncbi.nlm.nih.gov/pubmed/2658055
https://www.ncbi.nlm.nih.gov/pubmed/?term=hla-dp+staph

http://research.ku.dk/search/?pure=en/publications/inhibition-of-allostimulated-hladq-and-dpspecific-t-cells-by-staphylococcal-enterotoxin-a(ef2d70f0-fd95-11dd-b219-000ea68e967b).html

HLA-DPw4 and multiple sclerosis (staph can trigger autoimmune disease)
https://www.ncbi.nlm.nih.gov/pubmed/2641759

HLA- DPw4 and Alopecia (staph can trigger autoimmune disease)
https://www.ncbi.nlm.nih.gov/pubmed/2375044

RSV virus and HLA-DP4
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC369497/

Viral fusion proteins and tyrosine tails
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3035738/

 paramyxovirus viruses and HLA-DP4?

HLA-DP5 and strep (M protein)

HLA-DP5 and strep
https://www.ncbi.nlm.nih.gov/m/pubmed/8863870/

M protein are protein sequences which look like immunoglobulins (antibodies)

HLA-DP5 and immunoglobulin binding in regard to pollen allergy
https://www.ncbi.nlm.nih.gov/pubmed/25020231

note that children with allergic rhinitis (hay fever caused by pollen allergies) doubled the the risk of developing tourettes...which has been linked to strep infecitons
http://www.tsplusblog.com/2011/03/allergies-are-associated-with-increased-rates-of-tourettes-syndrome-study/


Mycobacterias are growing inside cells so why can't I find an HLA-dp for when they leave?

HLA-B12, HLA-B44, HLA-B45, and HLA-B5....with herpes viruses?

HLA-B44 and herpes simplex 2
https://www.ncbi.nlm.nih.gov/pubmed/11986245

HLA-B44 and multiple sclerosis
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2931768/

HLA-B12 and herpes simplex 2
https://www.ncbi.nlm.nih.gov/pubmed/61533

HLA-B45, postransplant lymphoproliferate disorder and EBV
http://journals.lww.com/transplantationdirect/fulltext/2015/08000/HLA_Associations_and_Risk_of_Posttransplant.3.aspx

most of the time only beta estrogen receptors go to the mitochondria...but in some cases the alpha receptors do too
https://www.ncbi.nlm.nih.gov/pubmed/14736707

The question is does the alpha estrogen receptor that EBV uses cycle to the mitochondria in Bcells?

EBV infected lymphocytes has respiration changes...so it is possible
https://www.ncbi.nlm.nih.gov/pubmed/9309674
https://www.ncbi.nlm.nih.gov/pubmed/16448567


I had connected HLA-B5 to mitochondrial swelling

HLA-B5 and HLA-B45
https://www.researchgate.net/publication/13591620_Molecular_serological_and_population_studies_on_a_novel_HLA-B_allele--HLA-B5002


HLA-B5 and herpes simplex
https://www.researchgate.net/publication/22268625_HLA_types_and_recurrent_corneal_herpes_simplex_infection

HLA-b5 and Behcet's
https://www.ncbi.nlm.nih.gov/pubmed/1488888

Does HLA-B27 reflect small modifications of the mitochondria's P-glycoproteins by infections ?

HLA-A the nucleus

HLA-B the mitochondria

HLA-C the endoplasmic reticulum

HLA-DR the cytosol (encapsulated virus or foreign protein)

HLA-DQ the cytosol (not an encapsulated virus)

HLA-DP the plasma membrane (immune system cells APCs)

Does HLA-B27 reflect small modifications of the mitochondria's P-glycoproteins by infections ? 

Ankylosing spondylitis and HLA-B27
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1079257/
https://www.ncbi.nlm.nih.gov/pubmed/27826329

Ankylosing inflammation regressed by 54% in the etanercept group 
https://www.ncbi.nlm.nih.gov/pubmed/15818694

Etanercept is a TNF inhibitor

Cells exposed to TNF go through Necrosis where mitochondrias are released from cells
http://www.nature.com/cddis/journal/v5/n7/full/cddis2014277a.html

(high TNF and failing human heart)

TNF activates P-glycoprotein
https://www.ncbi.nlm.nih.gov/pubmed/17982267
https://www.ncbi.nlm.nih.gov/pubmed/17132686

P-glycoprotein in mitochondria
https://www.ncbi.nlm.nih.gov/pubmed/22307172

cell fusion involves p-glycoprotein
https://www.ncbi.nlm.nih.gov/pubmed/12960149

Does the fusion of mitochondria involve p-glycoproteins?

Measles HLA-DR1 and HLA-B27

https://www.ncbi.nlm.nih.gov/pubmed/12117677

HLA-B27 and measles fusion protein
https://www.ncbi.nlm.nih.gov/pubmed/7680390

With measles it was found that a fusion glycoprotein was recognized by HLA-B27

So does the use of HLA-B27 mean that these infections have something that disrupts mitochondrial fusion through p-glycoproteins? 

measles and mitochondrial dysfunction
https://www.ncbi.nlm.nih.gov/pubmed/20167981

reactive arthritis (RF negative) and HLA-B27
salmonella, shegella, campylobacteria

Spirochetes and HLA-B27
H.pylori https://www.ncbi.nlm.nih.gov/pubmed/17183194
   https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4403919/
Lyme http://bjo.bmj.com/content/77/8/480.full.pdf

mitochondrial broken into fragments after H.pylori infection
http://gut.bmj.com/content/53/6/805.full

psoriasis, psoriatic arthritis, crohn's,  mycobacterias and HLA-B27

mitochondrial damage after mycobacterial infection
http://www.jimmunol.org/content/169/9/5181.full

Achilles and HLA-b27
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1002212/

Achilles and TNF
https://www.ncbi.nlm.nih.gov/labs/articles/22572155/

Drug resistance and high p-glycoprotein
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3975434/

mitochondrial fusion defect and drug resistance
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4455774/

HIV alters fission and fusion of the mitochondria
https://www.ncbi.nlm.nih.gov/pubmed/26611103

HIV to AIDS...HLA-B27?
http://www.aidsreviews.com/files/2004_06_2_089-096.pdf

???? HLA-B27 binds aromatic peptides?
https://www.ncbi.nlm.nih.gov/pubmed/8225441?dopt=Abstract

HLA-B51 is involved with strep, clostridium, gangrene, and the mitochondrial swelling

Streptococcus and C. sordellii both cause HLA-B51?

HLA-B is the Tcell mailbox for the mitochondria

What are these bacterias doing to the mitochondria that is similar?

Necrotizing Fasciitis : they cause a gangrene
https://wwwnc.cdc.gov/eid/article/1/3/pdfs/95-0301.pdf

GAS (strep)
c.perfingens
c. septicum

Group A beta-hemolytic streptococcus AKA streptococcal gangrene & toxic shock

streptolysins induced mitochondrial swelling
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2106483/
http://www.sciencedirect.com/science/article/pii/0163725880900455

Clostridium causing mitochondrial swelling
http://www.nature.com/nrmicro/journal/v8/n10/full/nrmicro2421.html
http://www.jbc.org/content/282/12/9029.full

Behcet's disease and Streptococcus sanguinis
https://www.ncbi.nlm.nih.gov/pubmed/7487566
https://www.ncbi.nlm.nih.gov/pubmed/8577288
https://www.hindawi.com/journals/pri/2012/595380/

Behecet's and HLA-B51
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3867978/
http://www.clinexprheumatol.org/article.asp?a=1283
http://rheumatology.oxfordjournals.org/content/51/5/887.full

aphthous stomatitis and HLA-51
https://www.ncbi.nlm.nih.gov/pubmed/1408019

aphthous stomatitis and strep
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4221501/

Erythema nodosum, ulcerative colitis, Behcet's and HLA-B51
https://www.ncbi.nlm.nih.gov/pubmed/15098609

Ulcerative colitis and Behcet's
https://www.ncbi.nlm.nih.gov/pubmed/15098609

I had ulcerative colitis connected to c.sordellii

c.diff and c.sordelli
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4462011/

( C.sordelli and  H.pylori secrete urease.  The urease causes the ulcers
https://www.ncbi.nlm.nih.gov/pubmed/8730260 )

So what does strep and c.sordelli have in common?

c.sordelli and toxic shock
http://www.uptodate.com/contents/toxic-shock-syndrome-due-to-clostridium-sordellii

strep and toxic shock
https://wwwnc.cdc.gov/eid/article/1/3/pdfs/95-0301.pdf

Kawasaki and HLA-B51....or is it HLA-B22 ?
http://onlinelibrary.wiley.com/doi/10.1111/j.1399-0039.1982.tb00337.x/epdf
https://www.ncbi.nlm.nih.gov/pubmed/634680

HLA-B22 and HIV
http://jid.oxfordjournals.org/content/188/6/856.full.pdf

Kawasaki like syndrome in HIV patient
http://rheumatology.oxfordjournals.org/content/42/11/1427.full

streptococcus pyogenes in Kawasaki
https://www.ncbi.nlm.nih.gov/pubmed/8444235

streptococcus pyogenes: flesh eating bacteria

strep toxin isolated from Kawasaki patient

file:///Users/angelabiggs/Downloads/streptococcus-sanguis-toxin-recovered-from-patients-with-kawasaki-disease-activates-endothelial-cells-and-phagocytic-leukocytes.pdf

note that I already had HLA-B8 connected to HIV and mitochondrial fission...is this different?

soy intake has been connected to HLA-22 and Kawasaki disease...lost reference...still looking for it

soy has been notice during fertility procedures to alter the mitochondria
https://www.ncbi.nlm.nih.gov/pubmed/22134371

HLA-B52, mycobacterias, and the mitochondria

HLA-B is the mitochondria T-cell mailbox

Mycobacteria connected diseases seem to be linked to HLA-B52... the necrosis mitochondrial type?

What could mycobacterias be doing to the mitochondria?

tuberculosis and HLA-B52
https://www.ncbi.nlm.nih.gov/pubmed/16563877

plaque psoriasis and HLA-b52
https://www.ncbi.nlm.nih.gov/pubmed/22303505

plaque psoriasis and mycobacteria
https://erj.ersjournals.com/content/38/1/231.1

Takayasu and hla-B52
https://www.ncbi.nlm.nih.gov/pubmed/22309845

Takayasu and mycobacteria
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3089823/

Crohn's and HLA-B52
https://www.ncbi.nlm.nih.gov/pubmed/14530653

Crohn's and mycobacteria
https://www.ncbi.nlm.nih.gov/pubmed/12901893

mycobacteria protein goes to the mitochondria
https://www.microbiologyresearch.org/content/journal/micro/10.1099/mic.0.041996-0

HLA-B15, cardiolipins, COX, and sodium channels ?

Does HLA-B15 mean something is binding and messing up cytochrome c oxidase, COX?

Herpes simplex infects the mitochondria HLA-B is the mailbox for the mitochondria.

HLA-B15 and herpes simplex
https://www.ncbi.nlm.nih.gov/pubmed/6574617

erythema multiforme and HLA-b15
https://www.ncbi.nlm.nih.gov/pubmed/6406563
https://www.ncbi.nlm.nih.gov/pubmed/7947205

erythema multiforme, herpes, and HLA-b15
https://www.ncbi.nlm.nih.gov/pubmed/6406563

herpes and erythema multiforme
https://www.ncbi.nlm.nih.gov/pubmed/3415279

spondyloarthritis and HLA-B15
http://bmjopen.bmj.com/content/5/11/e009092.full

Herpes and spondyloarthritis
https://www.ncbi.nlm.nih.gov/pubmed/25980837

Herpes infection inhibits cardiolipin synthesis
https://www.ncbi.nlm.nih.gov/pubmed/4376810

mycoplasmas use cardiolipins: result is anti-cardiolipids during infection
https://www.ncbi.nlm.nih.gov/pubmed/2371184

steven-johnsons syndrome and mycoplasmas
http://pediatrics.aappublications.org/content/119/4/e1002
https://www.ncbi.nlm.nih.gov/pubmed/8912572

mycoplasmas, steven-johnson's, and erythema multiforme
https://www.ncbi.nlm.nih.gov/pubmed/17155996

drug induced steven-johnson's: carbamazepine ?
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2586963/

sodium channels are with cytochrome c oxidase (COX)
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1771975/

cardiolipins and COX
https://www.ncbi.nlm.nih.gov/pubmed/25727371

Overview of HLA-DRs (will be updated soon)

Overview of HLA-DRs....possible connections

DR1 splits into DR15 and DR16   they have citrullination outside of the cell

http://angelabiggs.blogspot.com/2016/11/hla-dr1-hla-dr15-hla-dr16.html

DR-2  binds the flu virus

http://angelabiggs.blogspot.com/2016/11/hla-dr2-binds-flu-virus.html

DR-3 splits into DR17  and DR18 they bind enteroviruses

http://angelabiggs.blogspot.com/2016/11/hla-dr-3-and-hla-dr17-bind-enteroviruses.html

DR-4 binds the flu virus

http://angelabiggs.blogspot.com/2016/11/hla-dr4-and-dopamine-this-page-is-still.html

DR-5 splits into HLA-DR11 and HLA-DR12 they all have cysteine changes
DR-5 Retrovirus DR12 paramyxovirus  ??diptheria toxin??

http://angelabiggs.blogspot.com/2016/11/do-hla-dr5-hla-dr11-and-hla-dr12.html

DR-6 splits into HLA-13 and HLA-14 they all have citrullination inside the cell

http://angelabiggs.blogspot.com/2016/11/looking-for-something-in-common-for-hla.html

DR-7 galactose binding

http://angelabiggs.blogspot.com/2016/11/does-hla-dr7-bind-galactose-and-blood.html

DR8 foreign cGMP

http://angelabiggs.blogspot.com/2016/10/mycobacterias-cgmp-and-hla-dr8.html

DR9 collagen issue

http://angelabiggs.blogspot.com/2016/11/hla-dr9-collagen-involved-mailbox.html

DR10 aquaporin issue

http://angelabiggs.blogspot.com/2016/11/hla-dr10-and-aquaporin.html

HLA-DR2 binds the flu virus

HLA-DR2 and the flu H1N1
https://www.ncbi.nlm.nih.gov/pubmed/1713610
https://www.ncbi.nlm.nih.gov/pubmed/2422266
https://www.ncbi.nlm.nih.gov/pubmed/2933850

Narcolepsy, flu, and HLA-DR2
https://www.ncbi.nlm.nih.gov/pubmed/24825774

HLA-DR 3 and HLA-DR17 bind enteroviruses

HLA-DR 3 and HLA-DR17 bind enteroviruses

HLA-DR3 and coxsackie
https://www.ncbi.nlm.nih.gov/pubmed/12941542
https://www.ncbi.nlm.nih.gov/pubmed/9498628
https://www.ncbi.nlm.nih.gov/pubmed/12845430

HLA-A33 and HLA-DR17 with enterovirus 71
http://pediatrics.aappublications.org/content/122/6/1271

Is HLA-DRw7 a steroid linked mailbox?

HLA-DRw7 and steroid responsive nephrotic syndrome
https://www.ncbi.nlm.nih.gov/pubmed/6931666

Nephrotic syndrome is when the kidneys leak large amounts of proteins
https://www.kidney.ca/childhood-nephrotic-syndrome

note that cortisone is a type of steroid and that i had hypothesized earlier that spirochete infections cause high levels of cortisone (if not secrete it themselves)

Bell's palsy I had linked to the flu and spirochetes
http://angelabiggs.blogspot.com/2016/11/bells-palsy-as-autoimmune-cross.html

HLAs and Bell's Palsy
http://jamanetwork.com/journals/jamaotolaryngology/article-abstract/613342


HLA-DR2 and HLA-DR4 are linked to the flu viruses

HLA-DR W6 and HLA-DR W7....are these the spirochetes? 

could the HLA-DRw7 be the cortisone part? I had previously linked HLA-Cw3 to cortisone

http://angelabiggs.blogspot.com/2016/10/spirochetes-high-cortisone-and-hla-c-w3.html

How does this stuff link together?

could it be that in the kidney the steroids are processed in the cytosol while other cell types has the steroids processed in the ER (hla-c is for the endoplasmic reticulum)

kidney and steroids in the cytosol
https://www.ncbi.nlm.nih.gov/pubmed/705813

HLA-DR4 and the flu, HLA-DP4 is very different (expressed on immune cells)

HLA-DR4

Flu viruses use dopamine receptors to enter cells and when it does the receptors are triggered

Influenza A is linked to HLA-DR4 infection of cells

Influenza A is likely using D2 dopamine receptors to infect cells
http://angelabiggs.blogspot.com/2016/08/5-types-of-dopamine-receptors-and-how.html

HLA-DR4 and type one diabetes
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC386650/
https://www.ncbi.nlm.nih.gov/pubmed/46642?dopt=Abstract

Further the groove in the HLA-4 seems to fit the flu proteins
https://www.ncbi.nlm.nih.gov/pubmed/16451200

Diabetes linked to flu
https://www.newscientist.com/article/dn22456-diabetes-linked-to-flu/

Dopamine D2-receptors when triggered inhibit insulin secretion
http://www.jbc.org/content/280/44/36824.long

(fast progression type one diabetes...is this the HLA-DR4 group? I think it is)

HLA-DP4

HLA-DP4 is the most common HLA group II...60% of the world's population
https://www.ncbi.nlm.nih.gov/pubmed/12471126

HLA-DP is the antigen presenting mailbox of immune system cells. As the most common it might have a wide range of binding epitopes.

The heart disease group of T. cruzi is connected to DPB1.04
https://www.ncbi.nlm.nih.gov/pubmed/10689123

HLA-DP4 and RSV
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC369497/

Hepatitis B and HLA-A2 with HLA-DP4
https://books.google.com/books?id=piaGObdInuIC&pg=PA136&lpg=PA136&dq=hla-dp4&source=bl&ots=BMv4ZYm1TN&sig=ocVFBWxHp651MbaqCpVtomTgpdo&hl=en&sa=X&ved=0ahUKEwjrkduU6KDQAhVCImMKHWlCBfQQ6AEIZDAJ#v=onepage&q=hla-dp4&f=false

HLA-B16, B38, B39 and mycobateria? Are these HLAs B16 the apoptosis mitochondria linked to cytochrome C release?

HLA-A the nucleus

HLA-B the mitochondria

HLA-C the endoplasmic reticulum

HLA-DR the cytosol (encapsulated virus or foreign protein)

HLA-DQ the cytosol (not an encapsulated virus)

HLA-DP the plasma membrane APC

peptide motifs of HLA-B38
https://www.ncbi.nlm.nih.gov/pubmed/7806291
http://onlinelibrary.wiley.com/doi/10.1111/j.1399-0039.1994.tb02361.x/abstract;jsessionid=F653AB8E10A05639C9568063A06C52E8.f04t02

Clozapine and HLA-b38
http://jamanetwork.com/journals/jamapsychiatry/article-abstract/495128

Clozapine induces mitochondrial damage
https://www.ncbi.nlm.nih.gov/pubmed/23527073

Clozapine, HLA-B38, and agranulocytosis
https://www.ncbi.nlm.nih.gov/pubmed/9587740

HLA-B16 was split into HLA-B38
http://link.springer.com/chapter/10.1007%2F978-3-642-69770-8_41

HLA-B38 and psoriatic arthritis and pemphigus vulgaris?
https://www.lalpathlabs.com/pathology-test/hla-b38-b38

Pemphigus vulgaris and M. tuberculosis
https://www.ncbi.nlm.nih.gov/pubmed/27396270

mycobacterium tuberculosis and cytochrome C release
https://www.ncbi.nlm.nih.gov/pubmed/14507307

cytochrome C release could cause the blistering

Cantharidin a compound from Blister Beetles has been shown to decrease mitochondrial cytochrome C and increase cytosolic cytochrome C

mycobacteria and HLA-B38? not just clozapine? DQB1.0201 ?

Schziophrenia with Agranulocytosis 80% have HLA-B38...from clozapine?
Agranulocytosis is extremely low white blood cell count (neutrophils?)
https://www.ncbi.nlm.nih.gov/pubmed/11281944

HLA-B16 is split into B38 and B39...compared binding motifs
http://link.springer.com/article/10.1007/s00251-015-0898-2

HLA-B39 links to Takayasu's (mycobacteria) and Chagas (t.cruzi) in heart
https://en.wikipedia.org/wiki/HLA-B39

HLA-B16 I had connected to beta herpes like Zoster and simplex..in schizo but maybe this is wrong and it was the type of mycobacteria?????

Herpes Zoster and simplex are know to alter cell cycles
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC353735/

Are the B38 and B39 also involved with mitochondrial??

Looking at the genetic cause of agranulocytosis called Kostmann disease it looks like mitochondrial apoptosis is involved
http://www.omim.org/entry/610738

protein localizes to mitochondria
https://www.ncbi.nlm.nih.gov/pubmed/9058808

HLA-DR10 and aquaporin ?

Does the HLA-DR10 mailbox pick up proteins involved with aquaporin changes?

ovalbumin is picked up by HLA-DR10
https://www.karger.com/Article/Pdf/236818

aquaporin and ovalbumin induced asthma (does ovalbumin up regulate aquaporin?)
http://www.nature.com/articles/srep25781

antibodies to aquaporin 4 in neuromyelitis  optica
https://www.ncbi.nlm.nih.gov/pubmed/18334978

HLA-DR10 devic's disease or neuromyelitis optica
http://www.neurology.org/content/82/10_Supplement/P2.271

aquaporin is upregulated in RA
https://www.ncbi.nlm.nih.gov/pubmed/20149606

HLA-dr10 has also been connected to RA in spanish genes
http://www.sciencedirect.com/topics/page/HLA-DR10

HLA-DR9 the collagen involved mailbox

HLA-DR9 gelatin allergy
https://www.ncbi.nlm.nih.gov/pubmed/11312025

HLA-DR9 and active retinal necrosis syndrome
https://www.ncbi.nlm.nih.gov/pubmed/1775301

HLA-A33- DR3 and HLA-A33-dr9
http://onlinelibrary.wiley.com/doi/10.1111/jdi.12462/full

HLA-A33 connects with enterovirus 71
https://www.ncbi.nlm.nih.gov/pubmed/19047245

Punicalagin is a compound from pomegranate
http://www.nutraingredients-usa.com/Research/Pomegranate-extracts-show-joint-and-skin-health-potential

Punicalagin has been found to be antiviral against enterovirus 71
http://chinaknockoutrat.com/filedbroot/website_yky/clobhtml_attach/2014/201408/2014087D7F9DB4B94EA73353BE867AF8DD65C7.pdf

Punicalagin inhibits the breakdown of collagen
https://www.ncbi.nlm.nih.gov/pubmed/23830812

gelatin is a form of collagen

HLA-DR1, HLA-DR15, HLA-DR16 citrullination outside of cell?

HLA-DR1, HLA-DR15, HLA-DR16

HLA-DR1, gingivalis and RA
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3467347/

RA and citrullination
http://www.news-medical.net/news/20131031/Scientists-unravel-the-major-cause-of-protein-citrullination-in-rheumatoid-arthritis.aspx

P. Gingivalis and citrullination
http://www.roadback.org/forums/topic/pathogens-and-seropositive-ra/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131749/

smoking and RA both have citrullination
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4284707/

smoking HLA-DR? and citrullination
https://www.ncbi.nlm.nih.gov/labs/articles/22537824/

DR-15 and aspergillus
http://www.sciencedirect.com/science/article/pii/S1569199302000334

HLA- DR1, DR-15 and HPV
https://www.ncbi.nlm.nih.gov/pubmed/17412975

HPV has citrullinated proteins in the viral coat
https://www.ncbi.nlm.nih.gov/pubmed/18511237

HLA-dr15 and early age MS
https://www.ncbi.nlm.nih.gov/pubmed/10939572

eczema and MS
http://www.pathologyjournal.rcpa.edu.au/article/S0031-3025(16)35289-8/pdf
https://www.ncbi.nlm.nih.gov/pubmed/11903117

which seems to hint that early onset MS is not a mycobacteria but a different infection like staph?

Flaggrin, citrullinatin, and eczema
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3378480/

Does HLA- DR7 bind galactose and blood type antigen binders? ???

The intestine, skin  pancreas, and heart express blood antigen groups

Blood group antigens are proteins with galactose on them

Heart and blood antigens
https://www.ncbi.nlm.nih.gov/pubmed/2048201

epithelial tissue and blood antigens
https://www.ncbi.nlm.nih.gov/pubmed/10698081

type one diabetes and HLA-7
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3193161/

HLA-DR 7 and psoriasis vulgaris
http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2133.1982.tb00934.x/abstract;jsessionid=B72BA620ACEE4472B50372FD4DD48988.f04t02

HLA-DR7 and chaga's cardiomyopathy
https://www.lalpathlabs.com/pathology-test/hla-dr7-drb107

t.cruzi binds galactose
https://www.academia.edu/19251738/Trypanosoma_cruzi_identification_of_a_galactose-binding_protein_that_binds_to_cell_surface_of_human_erythrocytes_and_is_involved_in_cell_invasion_by_the_parasite

blood type antigens are galactose bound proteins on cell surfaces

does mycobacteria bind blood type antigens?  psoriasis and HLA-7

HLA-dr7 and DH...no increase? or is there
http://gut.bmj.com/content/27/5/515.full.pdf
https://moh-it.pure.elsevier.com/en/publications/dermatitis-herpetiformis-severity-of-jejunal-lesions-and-hla-dr7
https://www.ncbi.nlm.nih.gov/pubmed/9098455

norvovirus binds blood type antigens (is this how it is spread by touch?) does it have HLA-DR7?
https://www.ncbi.nlm.nih.gov/pubmed/15936661

HLA-DR7 induced in lupus with chlorpromazine?
https://www.ncbi.nlm.nih.gov/pubmed/9451597

Chlorpromazine binds to the outside of e.coli and salmonella and inhibits them. Is it binding the part of the bacteria that binds the galactose of the blood antigen?

only the galactosylated form of dopamine enters the brain
https://www.ncbi.nlm.nih.gov/pubmed/18164552

Chlorpromazine binds the brain's dopamine receptor.....where the galactose would bind?

Is HLA-DR7 a galactose protein mailbox?

Is HLA-DR6, HLA-DR13, and HLA-DR14 for citrullination inside of or on cells?

HLA-DR6, HLA-DR13, and HLA-DR14 and Citrullination inside of or at cell?

HLA-DR14 and MG
https://www.ncbi.nlm.nih.gov/pubmed/16769963
https://www.ncbi.nlm.nih.gov/pubmed/23993985

HLA-DR14 and HLA-DR4 in Rheumatoid arthritis
https://www.ncbi.nlm.nih.gov/pubmed/21125177

MG, still's, brown's, and mycoplasmas
http://angelabiggs.blogspot.com/2016/06/myasthenia-gravis-browns-syndrome.html

JIA
HLA-DR4 and HLA-DR6
https://www.ncbi.nlm.nih.gov/pubmed/24618287

measles and HLA-DR13 (non response to vaccine?)
https://www.ncbi.nlm.nih.gov/pubmed/8763977

measles and citrullination
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799991/

hepatitis B and citrullination
https://www.ncbi.nlm.nih.gov/pubmed/19286846

RA and citrullination
http://www.news-medical.net/news/20131031/Scientists-unravel-the-major-cause-of-protein-citrullination-in-rheumatoid-arthritis.aspx

P. Gingivalis and citrullination (note that this was the HLA-DR1 group but we are looking at it now to compare with mycoplasmas)
http://www.roadback.org/forums/topic/pathogens-and-seropositive-ra/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131749/

note that arginine deaminase inhibits gingivalis attachment
https://www.researchgate.net/publication/233931217_Arginine_Deiminase_Inhibits_P_gingivalis_Surface_Attachment

I don't think that only gingivalis is an issue in RA because some mycoplasmas use arginine and attach to cells using arginine too

some mycoplasmas attach to cells and use arginine
https://books.google.com/books?id=YmEoAv_eQ3EC&pg=PA154&lpg=PA154&dq=mycoplasma+attach+arginine&source=bl&ots=ws1fi5f34s&sig=mHWiUkK4eX4A65EMHGpq8VKq2Es&hl=en&sa=X&ved=0ahUKEwismdXG4JbQAhVE02MKHUEkDIwQ6AEISTAJ#v=onepage&q=mycoplasma%20attach%20arginine&f=false

(under citrullination : arginine becomes citrulline)

problem: takayasu and hla-dr6....that's a mycobacteria?

patients with pulmonary tuberculous has antibodies to cyclic citrullinated proteins
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3621955/

This would mean that late onset MS would be mycobacteria with HLA-DR6

Do the HLA-DR5, HLA-DR11, and HLA-DR12 mailboxes involve cysteine changes?

Do the  HLA-DR5, HLA-DR11, and HLA-DR12 mailboxes involve cysteine changes?

I have paramyxoviruses and Retroviruses linked to them.

HLA-DR5 retroviruses
HLA-DR12 measles

HLA-dr12 and measles
http://www.microbiologyresearch.org/docserver/fulltext/jgv/80/7/0801609a.pdf?expires=1488398583&id=id&accname=guest&checksum=98D91E290E3279CACBC4D02E93E03654

Tiopronin intolerance has been linked to HLA-DR5, DR11, and DR12
https://www.ncbi.nlm.nih.gov/pubmed/7915222

Tipronin is a kidney stone drug that reacts with cysteine (sulfur containing)

Anti-phospholipid syndrome has been connected to HLA-DR5 and HLA-DR12
https://www.ncbi.nlm.nih.gov/pubmed/7575732

Anti-phospholipid syndrome has also been connected to Rubella aka german measles antibodies
https://www.ncbi.nlm.nih.gov/pubmed/22641586
https://www.ncbi.nlm.nih.gov/pubmed/19880561

APS and glycoprotein's cysteines becoming disulfide bridges through oxidation
http://cfpcwp.com/MCDG/wp-content/uploads/2013/02/antiphospholipidnejmra11128301.pdf

cysteine proteases and topavirus (measles is one of these viruses)
https://www.ncbi.nlm.nih.gov/pubmed/20483643

measles and HLA-dr
https://www.ncbi.nlm.nih.gov/pubmed/22944627

viruses and  proteases
https://www.ncbi.nlm.nih.gov/pubmed/2645167

still's disease and HLA-dr12 in japan
https://www.ncbi.nlm.nih.gov/pubmed/11752512

Bell's Palsy as autoimmune cross-targeting: spirochetes and flu viruses

Autoimmune cross-targeting hypothesis

The layering of 2 different infections on one target triggering autoimmune disease.  A viral infection marking the inside of the target then a bacterial, or fungal, or mycobacteria infection marking the outside.

bell's palsy and spirochetes
http://www.ncbi.nlm.nih.gov/pubmed/2589070bBorrelia
http://www.ncbi.nlm.nih.gov/pubmed/1632233 Borrelia
http://www.ncbi.nlm.nih.gov/pubmed/365078 Syphilis
http://www.ncbi.nlm.nih.gov/pubmed/12284236 syphilis
http://www.ncbi.nlm.nih.gov/pubmed/25648561 Leptospira
http://www.ncbi.nlm.nih.gov/pubmed/21613003 Leptospira
http://www.ncbi.nlm.nih.gov/pubmed/15287387 Leptospira

bell's palsy and herpes simplex???
http://www.ncbi.nlm.nih.gov/pubmed/9393551
http://www.ncbi.nlm.nih.gov/pubmed/16917546

is bell's palsy an autoimmune disease?
http://www.ncbi.nlm.nih.gov/pubmed/22684016 
http://www.ncbi.nlm.nih.gov/pubmed/22934210
http://www.ncbi.nlm.nih.gov/pubmed/51046  (compares it to guillian barre)

HLAs and Bell's Palsy
http://jamanetwork.com/journals/jamaotolaryngology/article-abstract/613342

The immune system is telling us that it is not herpes simplex ( would have been HLA-B)

HLA-DR2
HLA-DR4
HLA-DRW6
HLA-DRW7

which looking at the HLAs indicates this is triggered by the flu viruses!! HLA-DR2 and HLA-D4
Bell's Palsy has been known to start 2 weeks after a flu like episode.

Bell's Palsy and flu vaccine
http://www.medscape.com/viewarticle/763332
https://www.zocdoc.com/answers/3257/how-are-bells-palsy-and-the-flu-shot-related

The key here is to develop a vaccine that does not trigger the autoimmune bells palsy. (note that it is the flu virus antigen that actually triggers the autoimmune disease) We need to remove the receptor binding element of the vaccines so it can't get into cells and trigger the autoimmunity.

The HLA-DRw6 and HLA-DRw7 could be from the spirochete infection. I am looking at other possible spirochete infections for matches.

The 4 types of MS, the viruses, and the HLAs

The 4 major types of MS and the HLAs

HLA-A the nucleus

HLA-B the mitochondria

HLA-C the endoplasmic reticulum

HLA-DR the cytosol (encapsulated virus)

HLA-DQ the cytosol (not an encapsulated virus)

HLA-DP the plasma membrane of immune system cells

Primary progressive 

Primary progressive : polyomavirus  (hepatitis B, JC, BK) HLA-C
https://healthimpactnews.com/2014/new-study-hepatitis-b-vaccination-in-france-sparked-a-wave-of-new-cases-of-ms/

children and HLA-C and multiple sclerosis
http://www.tandfonline.com/doi/abs/10.3109/08916930903567492?journalCode=iaut20

primary after RIS
http://multiple-sclerosis-research.blogspot.com/2015/12/primary-progressive-ms-after-ris.html

RIS and gray matter
http://www.medpagetoday.com/resource-center/multiple-sclerosis/radiologically-isolated-syndrome/a/44699

Gray matter and childhood MS
https://www.ncbi.nlm.nih.gov/pubmed/26445729
https://www.facebook.com/notes/ccsvi-in-multiple-sclerosis/loss-of-gray-matter-in-pediatric-ms/10150216042297211/

gray matter and endoplasmic reticulum stress
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4518158/
http://www.ms-society.ie/uploads/File/Research/MS%20Ireland%20Final%20Report_FitzGerald_McMahon_McQuid_July2010.pdf

gray matter and hepatitis B ?
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0119339

to set off autoimmunity it just has to trigger the immune system as foreign it doesn't need to be active

If the JC becomes active PML can occur ? (MS medication Natalizumab )
http://www.medicalnewstoday.com/articles/311022.php

JC virus involves white matter and the demyelination of the brain (alien hand syndrome common where they lose control of a hand)

these polyomaviruses can hide dormant in the endoplasmic reticulum much like herpes zoster can hide dormant in the mitochondria

previously I examined vit D, polyomaviruses, and alopecia
http://angelabiggs.blogspot.com/2016/10/vitamin-d-receptor-and-polyomaviruses.html

the VDR (vit D receptor) gene increased the risk specifically for progressive multiple sclerosis
https://www.ncbi.nlm.nih.gov/pubmed/16076630

these polyomaviruses appear to use Serotonin receptors to enter cells and end up in the ER next to Vit D

Relapsing remitting

Relapsing-remitting: Herpes-alpha (zoster family)  HLA-B
https://www.ncbi.nlm.nih.gov/pubmed/1831772
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2931768/

Herpes zoster is a herpes-alpha virus which uses the beta-estrogen receptor. Beta-estrogen receptors cycle to the mitochondria which means that bursts of estrogen could reawaken the virus (mostly women)

this form of MS involves mitochondrial dysfunction
https://www.ncbi.nlm.nih.gov/pubmed/12559505
https://www.ncbi.nlm.nih.gov/pubmed/16392116/
https://www.ncbi.nlm.nih.gov/pubmed/19293237


Secondary progressive

secondary progressive : Flavivirus (Hepatitis C/dengue/ west nile) HLA-DR15  (20%)

https://www.ncbi.nlm.nih.gov/pubmed/21475933
https://www.ncbi.nlm.nih.gov/pubmed/17329717
https://www.ncbi.nlm.nih.gov/pubmed/10939572

secondary progressive MS is more common in mexico than primary because flaviviruses are more common there 

 http://ijmsc.org/doi/abs/10.7224/1537-2073-7.4.143

 cases of dengue fever in multiple sclerosis
https://www.ncbi.nlm.nih.gov/pubmed/27063625
http://jamanetwork.com/journals/jamaneurology/article-abstract/2548265

guillian barre overlapping MS
https://www.hindawi.com/journals/ad/2012/232139/
http://link.springer.com/article/10.1007%2FBF00314120

devic's and ms?

Progressive relapsing: (are some of these diagnosed as secondary?)

Herpes-gamma (epstein barr) herpes-beta ( HHV6 )  HLA-A

HLA-A3 and MS
https://www.ncbi.nlm.nih.gov/pubmed/993587
https://www.ncbi.nlm.nih.gov/pubmed/901638
https://www.ncbi.nlm.nih.gov/pubmed/2273414

ms and epstein barr
http://nn.neurology.org/content/3/5/e275.full.pdf
https://www.ncbi.nlm.nih.gov/pubmed/27725113
http://www.news-medical.net/news/20120106/Study-shows-how-Epstein-Barr-virus-triggers-MS.aspx

MS and HHV6 (herpes-beta)
https://www.ncbi.nlm.nih.gov/pubmed/20926836
https://www.ncbi.nlm.nih.gov/pubmed/21524958

seasonal MS relapses in italy
http://bmcneurol.biomedcentral.com/articles/10.1186/1471-2377-10-105

seasonal epstein barr
https://www.ncbi.nlm.nih.gov/pubmed/14520445

epstein barr in lymphocytes of multiple sclerosis
https://www.ncbi.nlm.nih.gov/pubmed/6309449?dopt=Abstract&holding=npg

other genes and progressive relapsing: TCR  (T cell receptor protein)
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1376877/

TCR protein and estrogen alpha-receptors
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC315468/

I am not sure how this fits together but herpes-gamma look like they use the estrogen alpha-receptors.

Extra notes

Autoimmune cross-targeting hypothesis: when 2 infections simultaneously infect a target, a virus inside and a larger infection outside that triggers autoimmune disease.  Mycobacterias or staph infecting the outside of the nerves while one of these viruses infects the inside.

late onset mycobacteria/psoriasis HLA-dr6
early onset staph/eczema HLA-dr15

Note that HLA-DR1.04  seems connected to a secreted bacterial/mycobacterial protein and this hasn't been figured out yet while HLA-DP might indicate something fungal? Green tea kills mycobacteria and lots of bacteria which would explain the expression HLA change for japan. Perhaps other infections like aspergillus could be involved in japan?

HLA-dp and Japan
http://europepmc.org/abstract/med/9756407