Cystic fibrosis CFTR image and further details from Wikipedia


Gene information

cystic fibrosis transmembrane conductance regulator (ATP-binding cassette sub-family C, member 7)

Interactomes

Cystic Fibrosis news headlines provided courtesy of Medical News Today.

KEGG pathways analysis of CFTR binding partners

To see these pathways annotated in red, cut and paste this list at this link

 

Enhanced links to genes and pathogens are provided by

The rationale behind this is posted at NaturePrecedings Please cite this and the webpage: Thank you

"Bioinformatics analysis of homologies between pathogen antigens, autoantigens and the CFTR cystic fibrosis protein: A role for immunoadsorption therapy?"

Also published: Pathogen and autoantigen homologous regions within the cystic fibrosis transmembrane conductance regulator (CFTR) protein suggest an autoimmune treatable component of cystic fibrosis.FEMS Immunol Med Microbiol. 2011

Bacteria, viruses and fungi that have been reported as colonisers in cystic fibrosis

Pathogens and cystic fibrosis Immune system and cystic fibrosis

Bacterial infections particularly staphylococcus and pseudomonas determine life expectancy in cystic fibrosis

Viral infections are also common determinants of severity

Almost 2000 mutations, truncations or polymorphisms in the CFTR gene are recorded in the cystic fibrosis mutation database.run by the Cystic Fibrosis Centre at the Hospital for Sick Children in Toronto A polymutant protein comprising 20 point mutations was constructed from this unformation and used for analysis in some cases.

Native and polymutant sequences of the CFTR protein

Blast Query

Target

Species with proteins homologous to the CFTR protein

Tag sizes correspond to the number of hits per species: Only the first ~ 100 are shown: See BLAST results for more

Links to BLASTS
Polymutant Bacteria
Xanthomonas campestris Staphylococcus epidermidis Thermoanaerobacter italicus Clostridium sporogenes Pseudomonas aeruginosa Streptococcus mutans Caldicellulosiruptor saccharolyticus Brucella Roseburia inulinivorans Geobacillus thermodenitrificans Gardnerella vaginalis Clostridium bartlettii Staphylococcus aureus Corynebacterium pseudotuberculosis Clostridium butyricum Mycobacterium smegmatis Carboxydibrachium pacificum Staphylococcus carnosus Bdellovibrio bacteriovorus Clostridium botulinum Clostridium kluyveri Xanthomonas oryzae Lysinibacillus sphaericus Caldicelulosiruptor becscii Geobacillus kaustophilus Thermotoga lettingae Lactobacillus johnsonii Coprococcus comes Orientia tsutsugamushi Pneumocystis jirovecii Clostridium carboxidivorans Thermoanaerobacter mathranii Burkholderia Cepacia Chlamydophila pneumoniae Blautia hansenii Ruminococcus torques Streptococcus pneumoniae Stenotrophomonas maltophilia Orientia tsutsugamushi Clostridium hiranonis Listeria seeligeri Clostridium scindens Verrucomicrobiae bacterium Turicibacter sp Butyrivibrio proteoclasticus Thermocrinis albus Haemophilus influenzae Lactobacillus jensenii Porphyromonas gingivalis Corynebacterium efficiens Bulleidia extructa Subdoligranulum variabile Clostridium spiroforme Shigella Streptococcus sanguinis Streptococcus agalactiae Paenibacillus Bacteroides capillosus Bacteroides pectinophilus Haemophilus parainfluenzae Alkaliphilus metalliredigens Listeria monocytogenes Escherichia coli Bacillus cereus Listeria grayi Streptococcus gallolyticus Symbiobacterium thermophilum Brevibacillus brevis Clostridium hathewayi Clostridium thermocellum Ruminococcus obeum Eubacterium eligens Bacillus pumilus Opitutus terrae marine gamma proteobacterium Exiguobacterium sibiricum Erwinia amylovora Bifidobacterium catenulatum Xylanimonas cellulosilytica Nostoc sp Microcystis aeruginosa Bacillus cellulosilyticus Prevotella Streptococcus suis Bacillus pseudofirmus Cytophaga hutchinsonii Gemella haemolysans Geobacillus sp Enterobacter cloacae Clostridium lentocellum Lactobacillus delbrueckii Dethiobacter alkaliphilus Streptococcus Millerii Lactobacillus sakei Bacillus thuringiensis Aeromonas hydrophila Parvimonas micra Listeria welshimeri Bacillus anthracis Aeromonas salmonicida Lysinibacillus fusiformis Aggregatibacter aphrophilus Vibrio Desulfitobacterium hafniense Bacillus mycoides Lactobacillus crispatus Streptococcus gordonii Streptococcus infantarius Dehalococcoides ethenogenes Scardovia inopinata Streptococcus uberis Granulicatella elegans Prochlorococcus marinus Bacillus subtilis
BLAST
Polymutant Viruses
Measles Xestia c-nigrum granulovirus Foot-and-mouth disease virus Influenza A virus West Nile virus Newcastle disease virus Synechococcus phage Neodiprion sertifer NPV Theiler's encephalomyelitis virus Lettuce mosaic virus Streptococcus phage Leuconostoc phage Aeromonas phage Hyphantria cunea nucleopolyhedrovirus Hepatitis B virus Gordonia terrae phage Dengue virus Human adenovirus Cryptophlebia leucotreta granulovirus Cucumber Bulgarian latent virus Regina ranavirus Enterobacteria phage Natrialba phage Human papillomavirus Groundnut bud necrosis virus human herpesvirus 1 Synechococcus phage lumpy skin disease virus Breda virus Acanthocystis turfacea Chlorella virus Norwalk-like virus Acidianus rod-shaped virus Turkey coronavirus Clostridium phage Jembrana disease virus Human astrovirus Human rhinovirus Pseudomonas phage Staphylococcus phage Mamestra configurata NPV-A Staphylococcus phage Black queen cell virus Hepatitis E virus Classical swine fever virus Human immunodeficiency virus 1 Batai virus Human herpesvirus 5 Porcine pestivirus Salmonella phage Cereal yellow dwarf virus Streptomyces phage Mammalian orthoreovirus Murid herpesvirus 1 Border disease virus Anticarsia gemmatalis nucleopolyhedrovirus Human parvovirus Chuzan virus Feline immunodeficiency virus Mycobacterium phage Infectious bronchitis virus Rotavirus GB virus C Escherichia phage Bacillus phage Equine arteritis virus Listeria phage Human immunodeficiency virus 2 Invertebrate iridescent virus Human herpesvirus 2 Paramecium bursaria Chlorella virus Hosta virus X Human respiratory syncytial virus Human herpesvirus 8 Human Herpesvirus 4 Stretch Lagoon orbivirus Human Herpesvirus 3 Acinetobacter phage Human bocavirus Tyuleniy virus Feldmannia species virus Vaccinia virus Rubella Human herpesvirus 7 Escherichia phage Siberian sturgeon herpesvirus Maguari virus Mycoplasma fermentans Human calicivirus Mokola virus Epizootic hemorrhagic disease virus Brochothrix phage Hepatitis C virus Lactobacillus phage Human T-lymphotropic virus Human enterovirus Choristoneura fumiferana Eggplant mosaic virus Grapevine virus B Human endogenous retrovirus K Sinorhizobium phage Japanese encephalitis virus Blueberry latent virus Amsacta moorei entomopoxvirus Burkholderia phage Mumps Lactate dehydrogenase-elevating virus Norovirus
BLAST
Polymutant Fungi
Candida albicans Candida glabrata Zygosaccharomyces rouxii Debaryomyces hansenii Laccaria bicolor Ustilago maydis Vanderwaltozyma polyspora Ashbya gossypii Moniliophthora perniciosa Penicillium marneffei Lachancea thermotolerans Kluyveromyces lactis Sordaria macrospora Aspergillus fumigatus Coprinopsis cinerea Emericella nidulans Podospora anserina Scheffersomyces stipitis Nectria haematococca Schizosaccharomyces pombe] Tuber melanosporum Malassezia globosa Aspergillus flavus Saccharomyces cerevisiae Cryptococcus neoformans Phaeosphaeria nodorum Schizosaccharomyces pombe Aspergillus terreus Aspergillus clavatus Ajellomyces capsulatus Aspergillus niger Pichia pastoris Lodderomyces elongisporus Schizophyllum commune Yarrowia lipolytica Gibberella moniliformis Trichophyton verrucosum Aureobasidium pullulans Penicillium chrysogenum Phanerochaete chrysosporium Glomus intraradices Alternaria brassicicola Schizosaccharomyces japonicus Aspergillus oryzae Talaromyces stipitatus Phaeosphaeria nodorum Neurospora crassa Debaryomyces hansenii Nectria haematococca Gibberella zeae Ajellomyces dermatitidis Chaetomium globosum Postia placenta Verticillium albo-atrum Kluyveromyces lactis Candida dubliniensis Aspergillus nidulans Sclerotinia sclerotiorum Arthroderma benhamiae Schizosaccharomyces japonicus Magnaporthe oryzae Coccidioides posadasii Candida tropicalis Uncinocarpus reesii Candida tropicalis Neosartorya fischeri Pichia guilliermondii Fusarium oxysporum Coccidioides immitis Meyerozyma guilliermondii Botryotinia fuckeliana Pyrenophora tritici-repentis Chaetomium globosum Pichia guilliermondii Magnaporthe oryzae Clavispora lusitaniae Paracoccidioides brasiliensis Lodderomyces elongisporus Vanderwaltozyma polyspora
BLAST
Polymutant P. Aeruginosa   BLAST
Polymutant S.Aureus   BLAST

gi|5107563|pdb|1CKZ|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator: Solution Structures Of Peptides Based On The Phe508 Region, The Most Common Site Of Disease-Causing Delta-F508 Mutation
MPGTIKENIIGV

SYDEYRYRSVIKA

Viruses   151
Bacteria   111
Staphylococcus or Pseudomonas   113
       
       

F508Del ENIIFGVSY

ENIIGVSY S.Aur/P.Aer/S.Malt Bacteria

 
Stenotrophomonas maltophilia Gordonia bronchialis Catenibacterium mitsuokai Lactobacillus ultunensis Aggregatibacter actinomycetemcomitans Porphyromonas gingivalis Burkholderia graminis Flavobacteriales bacterium Cellulomonas sp Eubacterium biforme Neisseria gonorrhoeae Orientia tsutsugamushi Pseudomonas syringae Clostridium nexile Waddlia chondrophila Fusobacterium varium Streptomyces scabiei Bacillus thuringiensis Vibrio harveyi Anaerococcus vaginalis Actinomyces odontolyticus Pedobacter Selenomonas Bacteroides vulgatus Streptococcus Millerii Bacillus cereus Sebaldella termitidis Idiomarina loihiensis Desulfovibrio Clostridium spiroforme Treponema denticola Francisella tularensis Catenulispora acidiphila Rhizobium leguminosarum Bacteroides thetaiotaomicron Clostridium cellulolyticum Clostridium perfringens Frankia Photobacterium damselae Bacteroides pectinophilus Rhodococcus Helicobacter pylori Clostridium papyrosolvens Peptoniphilus duerdenii Lactobacillus casei Pediococcus acidilactici Oribacterium Enterococcus faecalis Burkholderia cenocepacia Burkholderia glumae Bacteroides Hahella chejuensis Francisella philomiragia Rickettsia Streptococcus pneumoniae Ethanoligenens harbinense Staphylococcus aureus Azotobacter vinelandii Salmonella enterica Novosphingobium aromaticivorans Burkholderia Cepacia Clostridium ramosum Lactococcus lactis Butyrivibrio fibrisolvens Pseudomonas Aeruginosa Ruminococcus flavefaciens Clostridium phytofermentans Streptococcus pyogenes Veillonella Proteus mirabilis Croceibacter atlanticus Paenibacillus Haemophilus influenzae Citrobacter rodentium Candidatus Carsonella Symbiobacterium thermophilum Xanthomonas Clostridium difficile Actinobacillus pleuropneumonia Alistipes putredinis Pneumocystis jirovecii Shewanella violacea Mycobacterium tuberculosis Corynebacterium pseudodiphtheriticum Macrococcus caseolyticus Pelobacter propionicus Trichodesmium erythraeum Lactobacillus salivarius Streptococcus infantarius Psychroflexus torquis Campylobacter jejuni Chlamydophila pneumoniae Campylobacterales bacterium Candidatus Pelagibacter Photorhabdus luminescens Mycobacterium gilvum Clostridium botulinum Mitsuokella multacida Saccharophagus degradans Legionella pneumophila Parabacteroides distasonis Sphingomonas Anabaena variabilis Corynebacterium diphtheriae Chlamydia pneumoniae Desulfohalobium retbaense Butyrivibrio crossotus Pseudomonas putida Eubacterium dolichum Streptococcus mitis Legionella drancourtii Opitutaceae bacterium Prevotella melaninogenica Catenulispora acidiphila Leptotrichia goodfellowii
BLAST
Viruses
Trichoplusia ni Equine infectious anemia virus Hepatitis C virus Escherichia phage Human immunodeficiency virus Mycobacterium phage Tamiami virus Mushroom bacilliform virus Staphylococcus phage Geobacillus virus Molluscum contagiosum virus Cyanophage Lumpy skin disease virus Feline coronavirus Dengue virus Human herpesvirus 3 Norovirus Lactobacillus phage Human herpesvirus 7 Influenza A virus Human papillomavirus Grapevine virus Antheraea mylitta cypovirus Enterobacteria phage Marseillevirus Human herpesvirus 1] Mycobacterium phage Main Drain virus Measles Acanthamoeba polyphaga mimivirus Chronic bee paralysis virus Japanese encephalitis virus Capsicum chlorosis virus Infectious hypodermal and hematopoietic necrosis virus oatpox virus Pellor Fowlpox virus Broad bean true mosaic virus Enterobacteria phage Synechococcus phage haemorrhagic kidney syndrome virus Northway virus Amsacta moorei entomopoxvirus Flavobacterium phage Hepatitis B virus Adoxophyes orana nucleopolyhedrovirus Highlands J virus Western equine encephalomyelitis virus Bacillus phage Campylobacter phage Human poliovirus Polyomavirus Sclerophthora macrospora virus Pseudomonas phage Musca domestica salivary gland hypertrophy virus Deerpox virus Liao ning virus Murine cytomegalovirus Toscana virus Soybean chlorotic mottle virus Acinetobacter phage Human herpesvirus 6 Human herpesvirus 4 Turdivirus Gloxinia tospovirus Muromegalovirus Campylobacter phage Human enterovirus 71 SARS coronavirus Neodiprion sertifer NPV Emiliania huxleyi virus Adoxophyes honmai NPV Klebsiella phage Canna streak virus Infectious bronchitis virus Acanthocystis turfacea Chlorella virus Human coxsackievirus Human bocavirus Epizootic hemorrhagic disease virus Acidianus filamentous virus Foot-and-mouth disease virus Gremmeniella abietina Cotesia plutellae polydnavirus Leptospira biflexa temperate bacteriophage Paramecium bursaria Chlorella virus Simian-Human immunodeficiency virus Erwinia phage Mumps African swine fever virus Bidens mottle virus Peanut mottle virus Aeromonas phage Human herpesvirus 8 Brochothrix phage Streptococcus phage Clostridium phage Human endogenous retrovirus K Vaccinia virus Human respiratory syncytial virus Neisseria meningitidis phage Human rhinovirus wheat yellow mosaic virus Elephant endotheliotropic herpesvirus 2 Human endogenous retrovirus Massilia virus
BLAST
Fungi
Ashbya gossypii Lachancea thermotolerans Arthroderma otae Puccinia sorghi Hypocrea jecorina Moniliophthora perniciosa Podospora anserina Trichoderma hamatum Aspergillus oryzae Aspergillus terreus Cochliobolus heterostrophus Penicillium marneffei Nectria haematococca Lentinula edodes Sclerotinia sclerotiorum Puccinia graminis Vanderwaltozyma polyspora Schizosaccharomyces pombe Fusarium oxysporum Puccinia recondita Paracoccidioides brasiliensis Debaryomyces hansenii Zygosaccharomyces rouxii Cadophora gregata Schizosaccharomyces japonicus Enterocytozoon bieneusi Dekkera bruxellensis Emericella nidulans Ajellomyces capsulatus Coccidioides posadasii Coccidioides immitis Verticillium albo-atrum Clavispora lusitaniae Botryotinia fuckeliana Talaromyces stipitatus Ajellomyces dermatitidis Uncinocarpus reesii Chaetomium globosum Debaryomyces hansenii Postia placenta Trichoderma asperellum Aspergillus niger Brettanomyces custersianus Coprinopsis cinerea Sordaria macrospora Gibberella zeae Saccharomyces cerevisiae Candida tropicalis Neurospora crassa Penicillium chrysogenum Phaeosphaeria nodorum Neosartorya fischeri Aspergillus fumigatus Scheffersomyces stipitis Laccaria bicolo uccinia triticina Lodderomyces elongisporus Pichia guilliermondii Puccinia horiana Puccinia striiformis Aspergillus clavatus Tuber melanosporum Candida albicans Trichophyton verrucosum Pichia stipitis Arthroderma benhamiae Podospora anserina Aspergillus nidulans Yarrowia lipolytica Ajellomyces dermatitidis Aspergillus flavus Chaetomium globosum Arthroderma otae Lodderomyces elongisporus Pichia pastoris Arthroderma benhamiae Aspergillus nige Magnaporthe oryzae Candida dubliniensis Kluyveromyces lactis Cryptococcus neoformans Penicillium marneffei Schizophyllum commune Malassezia globosa Coprinopsis cine Opegrapha varia Pyrenophora tritici-repentis Encephalitozoon intestinalis Candida glabrata Clavispora lusitaniae Blastocladiella emersonii
BLAST

F508Del ENIIFGVSY

Del = ENIIGVSY S.Aur/P.Aer/S.Malt Bacteria

  • >gb|ADI98793.1| probable regulatory protein DeoR family [Staphylococcus aureus
    subsp. aureus ED133]8
    ENII +SY
  • GENE ID: 3237744 SACOL0921 | CBS domain-containing protein
    [Staphylococcus aureus subsp. aureus COL]
    +NIIGV
  • GENE ID: 6476997 Smal_2508 | hypothetical protein Stenotrophomonas maltophilia R551-3]
    +IIGV Y
  • >ref|ZP_01368311.1| hypothetical protein PaerPA_01005469 [Pseudomonas aeruginosa
    PACS2]
    EN+IGV
 

R74W NALWRCF
S.Aur/P.Aer/S.Malt Bacteria

 

 

  • >ref|ZP_06881604.1| adenylate cyclase [Pseudomonas aeruginosa PAb1]
    NALWR
  • GENE ID: 6477391 Smal_2892 | tRNA(Ile)-lysidine synthetase
    [Stenotrophomonas maltophilia R551-3]
    LWRC
  • GENE ID: 3793024 SAB1831c | hypothetical protein [Staphylococcus aureus RF122]
    NA WRC
BLAST
R117H KEEHSIA
S.Aur/P.Aer/S.Malt Bacteria
  • >gb|ACD39272.1| hypothetical protein PACL_0484 [Pseudomonas aeruginosa]
    EEH IA
  • gb|EFM07570.1| staphylococcal accessory regulator U [Staphylococcus aureus subsp. aureus ATCC BAA-39]
    K EHSI
  • GENE ID: 5759828 pEDINA_p19 | hypothetical protein [Staphylococcus aureus]
    KEEH
  • GENE ID: 6476459 Smal_3331 | threonine dehydratase
    [Stenotrophomonas maltophilia R551-3]
    EEH IA
BLAST
G124C IYLCIGL
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 5356151 PSPA7_0891 | RND efflux transporter
    [Pseudomonas aeruginosa PA7]
    IYLC G
  • GENE ID: 5356552 PSPA7_0172 | 3-oxoacyl-(acyl carrier protein) synthase
    [Pseudomonas aeruginosa PA7]
    LCIGL
  • >gb|ADI96785.1| hypothetical protein SAOV_0248 [Staphylococcus aureus subsp.
    aureus ED133]
    LCIGL
  • GENE ID: 6393293 Smlt3043 | putative ISXac3 like transposase
    [Stenotrophomonas maltophilia K279a]
    YLCI L
    Sbjct 129 YLCIVL 134
BLAST
V201M AHFMWIA
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 3913891 SAUSA300_0980 | hypothetical protein
    [Staphylococcus aureus subsp. aureus USA300_FPR3757]
    HFMWI
  • >ref|ZP_06876458.1| putative acyltransferase [Pseudomonas aeruginosa PAb1]
    MWIA
  • GENE ID: 6477949 Smal_0246 | hypothetical protein[Stenotrophomonas maltophilia R551-3]
    MWIA
BLAST
N287K MIEKLRQ
S.Aur/P.Aer/S.Malt Bacteria
  • >gb|ADI98383.1| hypothetical protein SAOV_1921c [Staphylococcus aureus subsp. aureus ED133]
    MIEKL Q
  • GENE ID: 6477998 Smal_0813 | hypothetical protein
    [Stenotrophomonas maltophilia R551-3]
    MIEKLR
  • [Pseudomonas aeruginosa LESB58]
    M+EKLR
BLAST
R344W IILWKIF
S.Aur/P/Aer/S.Mal Bacteria
  • >dbj|BAA88419.1| hydrophobic transmembrane protein [Staphylococcus aureus]
    IILW IF
  • GENE ID: 5355417 PSPA7_0951 | hypothetical protein [Pseudomonas aeruginosa PA7]
    IL WKIF
  • GENE ID: 6476673 Smal_2260 | hypothetical protein
    [Stenotrophomonas maltophilia R551-3]
    WKIF
BLAST
R352E AVTEQFP
S.Aur/P.Aer/S.Malt Bacteria
  • emb|CAW29475.1| Gene info linked to CAW29475.1 probable major facilitator superfamily (MFS) transporter [Pseudomonas
    aeruginosa LESB58]
    AV EQFP
  • >gb|ADL22468.1| Ser-Asp rich fibrinogen/bone sialoprotein-binding protein SdrD
    [Staphylococcus aureus subsp. aureus JKD6159]
    VTEQF
    Sbjct 490 VTEQF 494
  • GENE ID: 6476745 Smal_3466 | RND efflux system, outer membrane lipoprotein,
    NodT family [Stenotrophomonas maltophilia R551-3]
    VTEQF
BLAST
K464A GAGATSL
S.Aur/P.Aer/S.Malt Bacteria
  • >ref|ZP_06878929.1| fimbrial subunit CupA4 [Pseudomonas aeruginosa PAb1]
    Length=402
    GAGAT L
  • GENE ID: 6395375 Smlt1512 | putative exported fimbriae-related chaperone
    [Stenotrophomonas maltophilia K279a]
    AGATSL
  • gb|EFM07900.1| molybdate ABC superfamily ATP binding cassette transporter, binding
    protein [Staphylococcus aureus subsp. aureus ATCC BAA-39]
    AGATS
BLAST
M469I SLLIVIM
S.Aur/P.Aer/S.Malt Bacteria
  • >gb|ADL66280.1| Sec family Type I general secretory pathway preprotein translocase SecY_1 [Staphylococcus aureus subsp. aureus str. JKD6008]
    SLLIVI
  • GENE ID: 6478455 Smal_1028 | hypothetical protein
    [Stenotrophomonas maltophilia R551-3]
    LLIV+M
BLAST
G480C PSECKIK
S.Aur/P.Aer/S.Malt Bacteria
  • gb|EES98134.1| conserved hypothetical protein [Staphylococcus aureus subsp.
    aureus TCH130]
    SECKI
  • GENE ID: 6394958 sucD | succinyl-CoA synthetase subunit alpha
    [Stenotrophomonas maltophilia K279a]
    P ECKI
  • >gb|AAD21623.1| succinyl-CoA synthetase alpha subunit [Pseudomonas aeruginosa PAO1]
    P ECKI
    Sbjct 130 PGECKI 135
BLAST
V510D IFGDSYD
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 6477620 Smal_0071 | beta-lactamase
    [Stenotrophomonas maltophilia R551-3]
    FGDSYD
  • >gb|ADI96775.1| conserved hypothetical protein [Staphylococcus aureus subsp.
    aureus ED133]
    IF GDSYD
  • >ref|ZP_06881234.1| hypothetical protein PaerPAb_26559 [Pseudomonas aeruginosa PAb1]
    FGDSY
BLAST
G551D SGDQRA
S.Aur/P.Aer/S.Malt Bacteria
  • >gb|ADL23188.1| oligopeptide ABC superfamily ATP binding cassette transporter,
    membrane protein [Staphylococcus aureus subsp. aureus JKD6159]
    SGDQRA
  • >ref|ZP_06881833.1| DNA polymerase I [Pseudomonas aeruginosa PAb1]
    SGDQR
  • gb|ACF51726.1| Gene info linked to ACF51726.1 efflux transporter, RND family, MFP subunit [Stenotrophomonas maltophilia R551-3]
    GDQRA
    Sbjct 46 GDQRA 50
BLAST
A561E LAR EVYK
S.Aur/P.Aer/S.Malt Bacteria
  • CAQ49719.1| tRNA-I(6)A37 thiotransferase enzyme MiaB [Staphylococcus aureus ST398]
    LARE YK
  • GENE ID: 6474448 | AAA ATPase [Stenotrophomonas maltophilia R551-3]
    AREVY
  • GENE ID: 5354737 | hypothetical protein [Pseudomonas aeruginosa PA7]
    LARE YK
    > gb|AAK50437.1| unknown [Pseudomonas aeruginosa]
    AREVY
BLAST
P841R ESIRAVT
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 6391398 Smlt0713 | hypothetical protein
    [Stenotrophomonas maltophilia K279a]
    ESIRAV
  • >ref|ZP_06879943.1| succinyl-diaminopimelate desuccinylase [Pseudomonas aeruginosa PAb1]
    SIRAVT
  • >gb|ADL23193.1| phosphate ABC superfamily ATP binding cassette transporter, membrane protein [Staphylococcus aureus subsp. aureus JKD6159]
    E IRAV
    Sbjct 180 EAIRAV 185
BLAST
S895N KGNNTHS
S.Aur/P.Aer/S.Malt Bacteria
  • >pdb|3ITP|A Structure related to 3ITP_A Chain A, Crystal Structure Of Staphylococcal Nuclease Variant Delta+phs F34k At Cryogenic Temperature
    KGNNTH
  • >ref|ZP_04933853.1| hypothetical protein PA2G_01187 [Pseudomonas aeruginosa 2192]
    KGNN H
  • GENE ID: 6474583 Smal_3703 | hypothetical protein
    [Stenotrophomonas maltophilia R551-3]
    KG NTHS
BLAST
D993R TIFRFIQ
S.Aur/P.Aer/S.Malt Bacteria
  • >gb|ADL24479.1| intercellular adhesion protein IcaC [Staphylococcus aureus subsp. aureus JKD6159]
    IFRFI
  • GENE ID: 6478446 Smal_1019 | alpha-glucosidase
    [Stenotrophomonas maltophilia R551-3]
    FRFI+
  • GENE ID: 7179795 PLES_56671 | hypothetical protein
    [Pseudomonas aeruginosa LESB58]
    +RFIQ
BLAST
K1250A GSGASTL
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 6477662 Smal_0113 | filamentous haemagglutinin family outer membrane
    protein [Stenotrophomonas maltophilia R551-3]
    GSG STL
    & GSGA T
    & ASTL
  • >ref|ZP_06881106.1| Putative methyltransferase [Pseudomonas aeruginosa PAb1]
    G GASTL
BLAST
N1303K FRKKLDP
S.Aur/P.Aer/S.Malt Bacteria
  • GENE ID: 6391536 O | presumed capsid scaffolding protein (gpo)
    [Stenotrophomonas maltophilia K279a]
    FRKKLD
  • >gb|ACD38843.1| proline racemase family protein [Pseudomonas aeruginosa]
    FRK LD
BLAST
G1349D LSHDHKQ
S.Aur/P.Aer/S.Malt Bacteria
  • >ref|ZP_06879005.1| hypothetical protein PaerPAb_15331 [Pseudomonas aeruginosa PAb1]
    LSHD KQ
  • GENE ID: 6395416 Smlt1637 | putative transmembrane protein
    [Stenotrophomonas maltophilia K279a]
    LSHDH
BLAST

Analysis of F508Del MHC-1 T-cell epitopes

Allele

Sequence and link to BLAST IC50 nM Equivalent Pathogen sequence and pathogens
HLA A*0250 TIKENIIGV 3.5
  • TIKENIIG: Anaerococcus prevotii: Chryseobacterium gleum;Prevotella copri
  • TIKEFIIGV: Bacillus Cereus
  • TIKENIFIG: Staphylococcus lentus
HLA A*0211 TIKENIIGV 28.4
HLA A*0203 57.9
HLA A*0212 98.8
HLA A*0250 IKENIIGVS 8.8
  • IKENII-VS: Bacteroides ovatus
  • IKEVNIIGV: Filifactor alocis
  • KENIIGIVS: Brachyspira pilosicoli
  • KEQNIIGVS: Clostridium perfringens
HLA A*0250 IGVSYDEYRI 44.4
  • GISYDEYR: Brachyspira pilosicoli
  • IGVSY-EYR: Prevotella marshii
  • IGDSYDEYR: Acinetobacter calcoaceticus
  • IIGVSIYDE: Coraliomargarita akajimensis
  • IIGVSYMDE Brevibacillus brevis
  • IIGVSCYDE Xanthomonas campestris
  • IIGVSYTDE: Burkholderia phage
HLA A*6801 61.7
HLA B*1503 KENIIGVSY 45.9
  • KENIIPVSY: Shewanella frigidimarina
  • KENIIGIS :Clostridium botulinum
  • KENDIIGVS: Clostridium difficile
  • KEQNIIGVS Clostridium Perfringens
  • KENIIGIVS:Brachyspira pilosicoli
  • NIIGVS: Staphylococcus aureus
  • KENIIG: Staphylococcus aureus
HLA A*3201 63.5
HLA A*0250 NIIGVSYDE 62.6
  • IIGVSYD: Pantoea sp AND Cellulomonas flavigena and Klebsiella sp.AND Cronobacter turicensis and Sorangium cellulosum AND Enterobacter sakazakii AND Buchnera aphidicola AND Pelobacter propionicus
  • NIIGVSY: Clostridium acetobutylicum
HLA B*1503 IIGVSYDEY 76.6
  • GVSYDEY: Sulfurimonas autotrophica AND Eubacterium cylindroide
  • IIGVSYD: Pantoea sp AND Cellulomonas flavigena and Klebsiella sp.AND Cronobacter turicensis and Sorangium cellulosum AND Enterobacter sakazakii AND Buchnera aphidicola AND Pelobacter propionicus
       
HLA A*6801      
HLA A*2602    

HLA A*0206      
HLA A*6801      
HLA A*6901      
HLA A*3002      
HLA B*1801      

Analysis of the top scoring Polymutant T cell epitopes with IC 50 values of less than 500 nM

Epitope Pathogen homologues      
LSHDHKQLM
  • gb|EFK87621.1| conserved hypothetical protein [Lactobacillus reuteri SD2112]
    LS+DHKQL
  • GENE ID: 9448473 cpfrc_00542 | Superfamily I DNA and RNA helicases[Corynebacterium pseudotuberculosis FRC41]
  • and gb|EFG18270.1| beta-lactamase [Bacteroides vulgatus PC510]
  • and >ref|ZP_04543070.1| glycoside hydrolase family 3 protein [Bacteroides sp. 9_1_42FAA]
  • and >ref|ZP_06318287.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WBG10049]
  • and >ref|ZP_04581853.1| conserved hypothetical protein [Helicobacter bilis ATCC 43879]
    DHKQLM
  • GENE ID: 7177601 PLES_32641 | putative TonB-dependent receptor [Pseudomonas aeruginosa LESB58] (10 or fewer PubMed links)
    LSHD KQ
  • GENE ID: 6395619 Smlt1578 | putative oxidoreductase [Stenotrophomonas maltophilia K279a]
    LSHDH L
LNLMTHSVN
  • >gb|ADC28234.1| conserved hypothetical protein [Campylobacter jejuni subsp. jejuni IA3902]
    LNLM HSV
  • gb|EFH02141.1| Heat shock protein Hsp90-like protein [Methylosinus trichosporium OB3b]
    L LMTHSV
  • GENE ID: 3973846 RPC_4929 | heat shock protein 90[Rhodopseudomonas palustris BisB18] (10 or fewer PubMed links)
    LNLM HSV
  • gb|EFF92095.1| M18 family peptidase [Streptomyces sp. e14]
    +LMTHSV
  • GENE ID: 5868664 PputGB1_0904 | TonB-dependent siderophore receptor[Pseudomonas putida GB-1]
    LNLMTH
  • >gb|ADL23358.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus
    aureus subsp. aureus JKD6159]
    NLMTH
  • GENE ID: 879520 PA1564 | sulfur transfer protein SirA [Pseudomonas aeruginosa PAO1] (10 or fewer PubMed links)
    MTHSV+
LSGDQRARI
  • GENE ID: 7706275 GAU_3796 | MarR family transcriptional regulator [Gemmatimonas aurantiaca T-27]
    LSGDQRAR
  • gb|EFL04951.1| acetyl-CoA carboxylase, biotin carboxylase [Streptomyces sp. AA4]
    LS DQRARI
  • GENE ID: 2949628 pFBAOT6.68 | hypothetical protein [Aeromonas punctata]
    LS DQRARI
  • GENE ID: 1041853 PP_4844 | branched-chain amino acid ABC transporter, ATP-binding protein, putative [Pseudomonas putida KT2440]
    LSGDQR RI
  • gb|EFM28834.1| ABC superfamily ATP binding cassette transporter ATP binding and permease protein [Streptococcus gallolyticus subsp. gallolyticus
    LSG QRARI
  • GENE ID: 6395514 dxr | 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Stenotrophomonas maltophilia K279a]
    LS DQRAR
WKIFTTISF
  • gb|EFG32509.1| histone acetyltransferase MYST3 [Parascardovia denticolens F0305]
    KIFTTI F
  • GENE ID: 5090483 Fjoh_2853 | hypothetical protein [Flavobacterium johnsoniae UW101]
    IFTTISF
  • GENE ID: 9444738 spoIVB | putative stage IV sporulation protein B [Clostridium ljungdahlii ATCC 49587] (10 or fewer PubMed links)
  • and >ref|ZP_06879968.1| putative oxidoreductase [Pseudomonas aeruginosa PAb1]
  • and GENE ID: 7310500 Ccel_1766 | binding-protein-dependent transport systems inner
    membrane component [Clostridium cellulolyticum H10]
    KIFTTIS
LSHDHKQLM
  • GENE ID: 8550656 Gbro_1311 | glutamine synthetase catalytic region [Gordonia bronchialis DSM 43247]
    L HDH QLM
  • GENE ID: 9448473 cpfrc_00542 | Superfamily I DNA and RNA helicases [Corynebacterium pseudotuberculosis FRC41]
    DHKQLM
  • >ref|ZP_07126319.1| conserved hypothetical protein [Lactobacillus reuteri SD2112]
    gb|EFK87621.1| conserved hypothetical protein [Lactobacillus reuteri SD2112]
    LS+DHKQL
  • gb|EFG18270.1| beta-lactamase [Bacteroides vulgatus PC510]
    DHKQLM
  • >ref|ZP_06620556.1| GPR endopeptidase [Turicibacter sp. PC909]
    LSHDH QL
  • > ref|ZP_06318287.1| conserved hypothetical protein [Staphylococcus aureus subsp.
    DHKQLM
  • >ref|ZP_06879005.1| hypothetical protein PaerPAb_15331 [Pseudomonas aeruginosa PAb1]
    LSHD KQ
  • GENE ID: 6395619 Smlt1578 | putative oxidoreductase
    [Stenotrophomonas maltophilia K279a]
    LSHDH L
LTIFRFIQL
  • GENE ID: 8961216 SAR116_0887 | binding-protein-dependent transport systems
    inner membrane component [alpha proteobacterium IMCC1322]
    IFRFIQL
  • GENE ID: 7266404 Cagg_1913 | histidine kinase [Chloroflexus aggregans DSM 9485]
    TIFRFIQ
  • GENE ID: 7036539 Aflv_0307 | hypothetical protein [Anoxybacillus flavithermus WK1]
    TIFRFIQ
  • GENE ID: 8420166 Dret_2306 | histidine kinase
    [Desulfohalobium retbaense DSM 5692]
    TIF RFIQL
  • GENE ID: 1121274 glpP | glycerol uptake operon antiterminator regulatory
    protein [Staphylococcus aureus subsp. aureus Mu50]
    LTIFR FI
     
IFRFIQLLL
  • GENE ID: 8966627 SVI_2431 | transcriptional regulator, AraC family
    [Shewanella violacea DSS12]
    IFR+IQLL
    [Candidatus Puniceispirillum marinum IMCC1322 binding-protein-dependent transport systems inner membrane component
    IFRFIQL
  • gb|EFI85297.1| YihY family protein [Listeria grayi DSM 20601]
    FRF+QLLL
  • >ref|ZP_05032724.1| Fatty acid desaturase domain protein [Brevundimonas sp. BAL3]
    FRFIQLL
  • GENE ID: 911069 MYPU_6770 | hsdR [Mycoplasma pulmonis UAB CTIP]
    IFRFIQ L
  • emb|CBK78075.1| His Kinase A (phosphoacceptor) domain./Histidine kinase-, DNA
    gyrase B-, and HSP90-like ATPase. [Clostridium cf. saccharolyticum
    K10]
    IFR FIQLL
  • GENE ID: 7079350 LMHCC_0153 | transcriptional activator, Rgg/GadR/MutR family,
    C- domain protein [Listeria monocytogenes HCC23]
    RFIQLLL
     
ITLSGDQRA
  • GENE ID: 3956231 DSY3600 | hypothetical protein
    [Desulfitobacterium hafniense Y51]
    ITL GDQR
  • GENE ID: 9127099 ECL_04628 | hypothetical protein
    [Enterobacter cloacae subsp. cloacae ATCC 13047]
    ITLSG QRA
  • >emb|CBK79741.1| Cna protein B-type domain. [Coprococcus catus GD/7]
    ITLSGD+R
  • >ref|ZP_03291504.1| hypothetical protein CLONEX_03726 [Clostridium nexile DSM 1787]
    ITLSGD+R
  • gb|EFN92794.1| pullulanase, type I [Mobiluncus mulieris FB024-16]
    ITLSGDQ
  • >ref|ZP_07030833.1| TonB-dependent receptor plug [Acidobacterium sp. MP5ACTX8]
    TLSGDQR
  • GENE ID: 8570562 FI9785_658 | putative phosphoketolase
    [Lactobacillus johnsonii FI9785]
    TLSGDQR
  • GENE ID: 7175540 PLES_05341 | putative dehydrogenase
    [Pseudomonas aeruginosa LESB58]
    TLSGDQR
  • GENE ID: 4640152 AAur_2672 | putative integral membrane protein
    [Arthrobacter aurescens TC1]
    ITLSGD RA
  • >gb|ADL24304.1| DEAD/H helicase / Type III restriction enzyme, res subunit [Staphylococcus
    aureus subsp. aureus JKD6159]
    I LSGDQ
     
LIKGIILWK
  • GENE ID: 2769731 LIC12650 | hypothetical protein
    [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130]
    (10 or fewer PubMed links)
    LIKGI+LWK
  • GENE ID: 7080393 LMHCC_1689 | hypothetical protein
    [Listeria monocytogenes HCC23]
    IKGIILWK
  • >emb|CBL33575.1| Uncharacterized protein conserved in bacteria [Eubacterium siraeum
    V10Sc8a]
    LIKGII WK
  • >ref|ZP_04571646.1| methyltransferase [Fusobacterium sp. 4_1_13]
    LIK IILW
  • > ref|YP_008638.1| Gene info linked to YP_008638.1 hypothetical protein pc1639 [Candidatus Protochlamydia amoebophila UWE25]
    KGIILWK
  • >ref|ZP_07084272.1| possible transmembrane protein [Chryseobacterium gleum ATCC 35910]
    gb|EFK37359.1| possible transmembrane protein [Chryseobacterium gleum ATCC 35910]
    LI GIILW
  • emb|CAY48699.1| Gene info linked to CAY48699.1 tetracycline efflux protein [Staphylococcus aureus subsp. aureus ST398]
    IKGIIL


     
LIWCLVIFL
  • gb|EFG16718.1| sodium:neurotransmitter symporter family protein [Bacteroides vulgatus PC510]
    LIW LVIFL
  • gb|EFH23683.1| hypothetical protein NEIPOLOT_00512 [Neisseria polysaccharea
    ATCC 43768]
    LIWCL I+
  • GENE ID: 9106829 LCRIS_01794 | Abortive infection protein
    [Lactobacillus crispatus ST1]
    LIWC+V+ FL
  • GENE ID: 950354 HI1471 | iron chelatin ABC transporter permease protein
    [Haemophilus influenzae Rd KW20] (10 or fewer PubMed links)
    L W LVIFL
  • GENE ID: 1002973 MW0861 | hypothetical protein
    [Staphylococcus aureus subsp. aureus MW2] (10 or fewer PubMed links)
    CLVIFL
  • GENE ID: 5357568 PSPA7_1976 | O antigen flippase [Pseudomonas aeruginosa PA7]
    IWCLV+ L
     
CVLSHDHKQ
  • GENE ID: 5804480 ACL_0964 | divalent cation transporter[Acholeplasma laidlawii PG-8A]
    VL HDHKQ
  • >ref|ZP_06879005.1| hypothetical protein PaerPAb_15331 [Pseudomonas aeruginosa PAb1]
    VLSHD KQ
  • >ref|ZP_01882592.1| glycosyl transferase [Pedobacter sp. BAL39]
    +LSHDHK
  • > ref|YP_003831224.1| Gene info linked to YP_003831224.1 metallophosphoesterase [Butyrivibrio proteoclasticus B316]
    SHDHKQ
     

 

View Stats