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Commit f76f45ce authored by mrethore's avatar mrethore
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Merge branch 'Corynebacterium_resistance_database_update' into 'main' 

Corynebacterium resistance database update

See merge request !13
parents a92322c2 3b0db12b
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1 merge request!13Corynebacterium resistance database update
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__main__.py
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......@@ -53,7 +53,7 @@ Usage:
__authors__ = ("Melanie HENNART; Martin RETHORET-PASTY")
__contact__ = ("melanie.hennart@pasteur.fr; martin.rethoret-pasty@pasteur.fr")
__version__ = "1.5.0"
__version__ = "1.6.0"
__copyright__ = "copyleft"
__date__ = "2024/03/04"
......
data/resistance/Corynebacterium_diphtheriae/AMRProt-mutation_Cd.tab
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#taxgroup accession_version mutation_position mutation_symbol class subclass mutated_protein_name
Corynebacterium_diphtheriae WP_004566675.1 442 rpoB_S442F RIFAMYCIN RIFAMYCIN Corynebacterium_diphtheriae_rifamycin_resistant_RpoB
Corynebacterium_diphtheriae WP_004566675.1 442 rpoB_S442Y RIFAMYCIN RIFAMYCIN Corynebacterium_diphtheriae_rifamycin_resistant_RpoB
Corynebacterium_diphtheriae WP_004566675.1 442 rpoB_S442N RIFAMYCIN RIFAMYCIN Corynebacterium_diphtheriae_rifamycin_resistant_RpoB
Corynebacterium_diphtheriae WP_010933942.1 89 gyrA_S89F QUINOLONE QUINOLONE Corynebacterium_diphtheriae_quinolone_resistant_GyrA
Corynebacterium_diphtheriae WP_010933942.1 89 gyrA_S89V QUINOLONE QUINOLONE Corynebacterium_diphtheriae_quinolone_resistant_GyrA
Corynebacterium_diphtheriae WP_010933942.1 93 gyrA_D93A QUINOLONE QUINOLONE Corynebacterium_diphtheriae_quinolone_resistant_GyrA
Corynebacterium_diphtheriae WP_010933942.1 93 gyrA_D93Y QUINOLONE QUINOLONE Corynebacterium_diphtheriae_quinolone_resistant_GyrA
\ No newline at end of file
#taxgroup accession_version mutation_position mutation_symbol class subclass mutated_protein_name
\ No newline at end of file
data/resistance/Corynebacterium_diphtheriae/AMRProt_Cd
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......@@ -116,13 +116,6 @@ DAMYEYMAQSCAGNRVRRSVGSSLSCINLDWDAIRDKTKTKIESLKEHGPIKNKMSESPNKTVSEEKAKQYLEEFHQTAL
ANYASWAVNVAQVVDSKTADNLEKTTAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLMVAQAIPLVGELVDLGFAAYNFVESIINLFQVVHNSY
NRPAYSPGHKTQPFVHGGYAASWNTVEDSIIKTGFQGESGHDIKITAENTPLPIAGVLLPTIPGKLDVNKSKTHISVNGRKIRMRCRAIDDATTFCRPKT
PVYVGNGVHANLHVAFHRSSSEKIHSDETPLSSIDVLGYQKTVDHTKVNSKLSLFAEVKS*
>489946959|WP_003850266.1|1|1|tox_diphtheriae|tox_diphtheriae||1|TOXIN|TOXIN|Corynebacterium_diphtheriae_diphtheria_toxin_precursor_tox
MSRKLFASILIGALLGIGAPPSAHAGADDVVDSSKSFVMENFSSYHGTKPGYVDSIQKGIQKPKSGTQGNYDDDWKGFYSTDNKYDAAGYSVDNENPLSG
KAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSLTEPLMEQVGTEEFIKRFGDGASRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGKRGQ
DAMYEYMAQACAGNRVRRSVGSSLSCINLDWDVIRDKTKTKIESLKEHGPIKNKMSESPNKTVSEEKAKQYLEEFHQTALEHPELSELKTVTGTNPVFAG
ANYAAWAVNVAQVIDSETADNLEKTTAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLMVAQAIPLVGELVDIGFAAYNFVESIINLFQVVHNSY
NRPAYSPGHKTQPFLHDGYAVSWNTVEDSIIRTGFQGESGHDIKITAENTPLPIAGVLLPTIPGKLDVNKSKTHISVNGRKIRMRCRAIDGDVTFCRPKS
PVYVGNGVHANLHVAFHRSSSEKIHSNEISSDSIGVLGYQKTVDHTKVNSKLSLFFEIKS*
>1196085886|ARS60925.1|1|1|dtxR_pseudotuberculosis|dtxR_pseudotuberculosis||1|METAL_ION-REGULATED|REGULATOR|Corynebacterium_pseudotuberculosis_diphtheria_toxin_repressor_DtxR
MKDLVDTTEMYLRTIYELEEEGVTPLRARIAERLDQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRALATAVMRKHRLAERLLTDIIGLDIHKVHDE
ACRWEHVMSDEVERRLVDVLEDVTRSPFGNPIPGLDELGVSIKKKEGPGKRAVDVARATPRDVKIVQINEILQVDSDQFQALIDAGIRIGTTVTLSDVDG
......@@ -227,15 +220,6 @@ THVDGKEAQYSVREDKVEGFKTDYTSFGDAFTVVNKAEPTFLEVTKKWEDVTGDLPQEVTVHVVQTVDGKQTDYGDPLKL
PVTYSVREDAVDGYTSKVSGEGPEFTVTNRPDTPPTPLTTGVSVDKQWLDADGNVLDADAAATMPEVTVHVVQTVDGKSVDYGDPIALNADNNWSAEVDG
LPASVDGKEATYSVREDAVDGYTSKVSGEGPEFTVTNRPDTPPSTPPSTPPSTPPSTPPSTPPSTPPTTTSSTPVPPTPSQSGRGGGLALTGSSVLPVLA
LGALLTALGSTLVAMMRRRS*
>499236831|WP_010934371.1|1|1|DIP0543|DIP0543||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Putative_exo-sialidase_NanH
MHSSNRTYSRAILGLSAALTLSFTSLVAPVNAEELETVVPAIAEQEGEAPATLPSAETGLFDAAPPKPVARGAAGDLQLPAVNEEEVFEEGRVIRPPDEN
GKRCYRIPALITAKDGSLLLAFDDRYGPDEKSKTWCRDAPYDPGKSSATIKQTDIALYRSVNDGKSFENYGFIAQGTKDSRGLSYTDPALVVDRSSGKIF
AFFVRGYDKRVAQAVSGYHSGNVEGPITNRNVQDTIVIESEDNGRTWKNMKLISNLTDKVVVGGKTYTGRGRFVTSGSGVQLKFGLHAGRLIVPIAVDID
PSDSAKFVNLAIYSDDGGDTWEIGEGVAGVGYVSGDENKIIELSDGRLMMNSKEFKGGMRWSSYSEDQGKTWSDPVDHLIAPPDHPNMYNAGINVGLIKA
YPNAVKGSAASKVLLFSAPINRRNGSDYGVDGRENGWVMGSCDDGKTWSFGRQVEKNRFQYSSMTVMSDGSIGMVYESGTREEGMNLKFAKFNMAWLGAD
CLSNEALGLTGDIDKEIVAAQEKAAAATKEAQEAAEKVEKLTEELAAARKENDELKTQVKESEEAVGDLADKVFKLENAVTEAKKKATVAEKAVSDALAK
LQEAESIAEEQKAKAESAAAEAQALREKLEKLEGSILTAKENSEAEESADLSSTARDAADTARRAATDANGALSGQKQNEEKPAMGLMGILKVLAGIIPL
VAIIATIFQTFRLPFNIPGMR*
>0|CAE50071.1|1|1|DIP1546|DIP1546||2|VIRULENCE/ADHESIN|VIRULENCE/ADHESIN|Conserved_hypothetical_protein
MYRVFECFDELIDILEKSTGVPMTSNCMVPRHHMLALIDEARNALPNEIDDAQDVIDQQDEILRGAQERARTTIDEANEEARRTVTQSREEADALVADAE
EHAERVVRQAQDEADRLVDGARREADDTVNRAQAEAERLIASGNDQYQRSVDDGLAEQQRLVSEAEVVRRANEEAHRVVDAAHADSNRLRKECDTFVENK
......@@ -244,109 +228,6 @@ LADLEESLSSTLRTISRDRAALRRGAGASGGGNHSQS*
MNIRSTKIVAALVAMALCTPNIAFAQETSNLTTISGSTDVNGDFSLTRSISAINRNDSTPPDSKTIYVNPGDTIHVQLDLKGKKANRTHGFTSFKEVVSP
IQAFSASSGSLKYKKTSDPTLFAKQLDDIAPDTFKQTGDQTIEFKGNSPLGFGVTGNHVTIDYSYTAGNELGEYTTQFLPASEIDKERFNANDLSTLDLK
VVIEEPKEPSLGKILGWLGGVLGILAVVGGGLWHLLRNLIRI*
>499237964|WP_010935504.1|1|1|spaA|spaA||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaA
MTARGCRLATLATTLTFFVSNVTLASVFAEESQYHAVQLGESPLSVDGLSIPERTSIAVHALMGLPTGQPANGTKLDSIGLPKVDGMSFTLYRVNEIDLT
TQAGWDAASKIKLEELYTNGHPTDKVTKVATKKTEGGVAKFDNLTPALYLVVQELNGAEAVVRSQPFLVAAPQTNPTGDGWLQDVHVYPKHQALSEPVKT
AVDPDATQPGFSVGENVKYRVATKIPEIASNTKFEGFTVADKLPAELGKPDTNKITVTLGGKPINSTDVSVQTYQVGDRTVLSVQLAGATLQSLDQHKDQ
ELVVEFEAPVTKQPENGQLDNQAWVLPSNPTAQWDPEESGDAALRGMPSSRVSSKFGQITIEKSFDGNTPGADRTATFQLHRCEADGSLVKSDPPISLDG
KQEFVTGQDGKAVLSGIHLGTLQLESNVMKYTDAWAGKGTEFCLVETATASGYELLPKPVIVKLEANESTNVLVEQKVKIDNKKKNAGFELPLTGGSGRI
AITIGIVGLLVALASYVLSRRKDNR*
>0|WP_010935503.1|1|1|srtA|srtA||1|SpaA-type_pili|SpaA-type_pili|Fimbrial_associated_sortase_srtA
MRHRAGEHRNVFAILAFVIAIVSVGFLLYPVAATAWNNARQARVAQSYENSYEVDSPAVRDSVLEAARQYNTSVVGFPILDPWLNRASKNSGPYLDYLQQ
LNPQRAERPVIASISIPTIDAHLPIYHGTDTATLEHGLGHLYGSALPVGGTGTHPVITGHSGLANATLFDNLEDVKEHDPIYITVQGETLKYEVDAINVV
LPEDTKLLAPDPNKDQITLITCTPYAVNSHRLLVRAHRVDLDPNDPNLTQTGTKIWQPWMLWTAALALTAIAIIITLVLRRKRTTTHEK*
>0|WP_010935502.1|1|1|spaB|spaB||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaB
MKNNAINATVLSLALLTGTTPAHAQEANTLVIDLEPPAAFADDQPQGHNIDVTVAKLHNIDPEDHERIRALQRNGVPSTISEEQPHTARTDATGTATITN
LPPGTYVIRDTNTTKPRFSPLVIPLGIDTTSPTMTLRPKLIDATPGAPNVPSVPSPPSVTSPAPKKTPPRLAFTGASILGLLAIATISTLIGIALLRTRR
AEKKG*
>0|WP_010935501.1|1|1|spaC|spaC||1|spaA-type_pili|spaA-type_pili|SpaA-type_pili_major_subunit_SpaC
MSNLRTIKKRASIPAALVAILAMVMSIVLVPLIAAPSANAEPLPKKEFETCGGSVAISFDLSNSLSASDVEKSKQAALELVKSLKGSPYRFGIYTFASHS
PAAGNKNFTPVSLANDDGYNKVVAAINDIQMPAIRENKKGSPNGGTNWEGGLQAIANDIDRGIKYDAVYFITDGQPTWDNNGRNWLGTTTEVVELENAVT
QAKLISDKGAKLIPVGIGQLSDDKPFDLYKPILPSEDDYYWSRYPWKIDRSLTGKQMLEKITSPGLEPIILPDYSTLPQRMGQQIFTGCFQIAKNIIDAD
GNVIENPAGWNFDITAAGVQGIPPSIETDKNGQDTFAMKSINKESFKITITERPTGDQKQNFRFKNARCQRYSYGQAPTDIPIKTSDTSITLTADTKSLI
SCGFNNLPVVPVSVSKKVNVNTPQLLEELNNQTFDFTYSCEKGANEKEIKGEIKGVHNGESKEIGKVAVGTQCEIKEVTPKVDDSRMKLSTTWSSENTTA
DANQDNGTYRFKADTDAFKNKKTVLATAENNYEAQTATIKLTKTIINRDKIPATKLPEKFPVTYTCRYVPHPNARPEHGGLPETNPYFVDSKTVVVPRDG
SIEIGPFPVGTQCSFEETARLDPNVQADAKIPGFSLKTEWNSNICFGNTIDNNSQDCSTNSVWIPKPGQYSLNVENTYTRELASVEIEKTVSGDASDLTN
SHEFSFNLRCEDSGVEVYSQDNIVVKKDGRQVIENIPVDANCTLSEKQPEQKGVDFVVPAPFHLRASTAGDIVKVVVDNTAKRQVAPISIQKKVHKKDTF
SPEISASIDALTYSVVAECTVPGVETPRKVLKTVSDNQTVEFGNFPVGTTCSFSELTEAPAGTEMSYKFADGPEVTIEDSTPINKVLTNTFENARGELKV
TKKVLDGDMPQALVDQIPSSFTVNVACSITGNHSITLQKDEQKAVPGVVAGESCTLSEEVTPITGATHHKHWIKGELLEVADSTDITINPNGSNAIRLEN
HYETDAVSLELTKRVRVIDQVGNDVNSELKNAVVRPEQPFLFRYRCEINGQVVAENTLSADAINTGATKVPRGSICTVEEDSSSVELSNATLSHVEFFVH
GTKTNDKASVAINSDHNRLDATNTFTLKTGSFNLKKKVDGEGVSTIHEDRRFEISYRCTLGDWKKNGTITLGRFDSAESHSVKDIPVGASCEIIEDSEKA
QEPNAQVTARWTHTDSTNGWGDTEAACENHAACEVDPKNEFATTVVIAGNEKENFQGTFIVWNTYTYDKTKVEINKVLTNDGPELAGKDNFAFTLKCTDP
RFAGSDLADKHSIPDPTITVALNAKGQSRASYQVADERHDSVEVPVGYNCTVTENPIALYDAKATTQFSGPAVVENTAVQRTSSNSASARFVTEKQENNG
TQKIQVTNDYIRPRADVMVHKTIAKPEHSVDPWLLNTTYSITYKCDDPYIKDRSYSNDVDIQADAEKPTPIFADPTAHVKIPASAVCTFSENTEGHLPGE
VKGVVDETNKVAEFAGEHEKRSYFTPEIKDVVLSESEPTRIEFTNSYVMPQRILSLQKYVEGDPGHAVIAPEETFEFSYTCTMPHLFPNQPNPMSQEVGN
KVARGVIKIREGETWRSPEVPIGTSCTIKEEDDPALRTKLENNALRMVPTYLFPTERAGAASAPVIPPLTDRPIYNGTEPRLQMPESGIELNDAHSHTVV
INNVYTTDAEINIAKVNADNSPLPGAHFAIYGIGENGQRKELPEVADAPAKSAKSVEQALFAVRLRPGSYELVETQAPQGGQLLPKPWRFDVKAANAGAI
GDLEVTLDNYDADSGLITVEHPQGKPWLIKVANVSASTLPLTGSNGYLRWLLAGAAGLLVAAALWLVARRKR*
>0|WP_010934132.1|1|1|spaD|spaD||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaD
MKKNSLTIRSVTFAAVAGLSLGISAPGAVAIAEEGTQVQQTQRANIDFERKGSLTLHKKKGAESEKRATGKEMDDVAGEPLNGVTFKITKLNFDLQNGDW
AKFPKTAADAKGHETSTTKEVETSGNGTAVFDNLDLGIYLVEETKAPDGIVTGAPFIVSIPMVNEASDAWNYNVVAYPKNTETKTEKTVKDADQNIQDAY
TYTIKADAPTWGKDKKLTAFRFEDELDKRLDFQKVTEVKAGDTVLGTSDYTVNDPATDGNKLVVTLTDEGLKKVKSGDKMSLTFEVKRKEVGNTTELKNR
ADVIFNNPNTDKEVKNKTNEVVTYHGKLKVVKKDGKEAGKVLKGAEFELYQCTSAAVLGKGPLTVDGVKKWTTGDDGTFTIDGLHVTDFEDGKEAAPATK
KFCLKETKAPAGYALPDPNVTEIEFTRAKISEKDKFEGDDEVTLVSEIKNIKQGTPKLPMTGGAGVGILAAIGAAIVAAGAWFARRGAKN*
>0|WP_010934134.1|1|1|spaE|spaE||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaE
MTSHARAVRTSRRLVAAIALSAGLLGGAYGAVGVADAAKVAGLSDQPGVSRDYGTDTLSITLSPGNGDPVNPATGKVAGVTIKLQRLQGIDPENAADQAK
VRNTSADKIAGWPTDRTIKAVTNEAGQVRFQGLEKGIYLVTSQAPAGAAAGEYREISPFLVAVPFHTVADNPRPVEGVIVAKTNSTVPPTTPPWTPPTTP
STPPPGHTPPLRETPGSGDEKEREQGDLALTGVQIIGLVLAAVALMGAGLLMLLITKKRKQEG*
>0|WP_010934135.1|1|1|spaF|spaF||1|SpaD-type_pili|SpaD-type_pili|SpaD-type_pili_minor_subunit_SpaF
MKTKFMGVAAALTAALALVFGVAAPGALPSLPVATAQAQDRSFTVTSQQRYEQKGTRFIPNYKIPADQLSGGTITLGAGTVVTLESSIRFYLAPNDADFT
VYYTGTDGNWYETKATYKKVSVKKYEVTLPEITIGGAAEIEFKGVHRGPPNTVISAKFDVVGGTTQPEPEPDPAPEPQPAPEPEPGTSVNPAAPTAVDPA
TAPSCVEKGYINIPDTKGVDYFIGGELKHAGQHFYEGQKASVKVTAKPQNGYQFAAGAKTEWSFDFSGEVKDCSDSSEDPKPAAVEGRHFDAIGHEFAVE
ADPVDPTKPNAFTAKVTAESHMKYATVRIETDATFLDPQKYNLTLDQIEPGVTLQKRNVNIGNGFITMDVVPVKDGKPVDSAVVPKDAVFTFTNNLSENK
NLKIALDVYGANKSTPKPPDIISPPDGAQWVHGRVPNPPMPKRCGLRIAVVADLSTSLKYADSNGFDESKKAANALIDSLAGTPAELGIYNFAGGAPRNP
AGSTYGQNPPYISLQSDDGVSRAKSIVSNWNGNGSTNWEAGLKQVAAGNYDVVYFITDGMPTYSSKAPQLGLGGEFVQESALNQAIDAANELKAAGTRVV
PIMVDLTVGGKNAQHTTVTQDLVLKNVRFWKRGTSNSEPGLYFQFTNKYVDAASYVGDDTTANFEIAYKNGGFKVWERTSRGRNIDVTRDQSKWTYGPRE
VKTMGEDISGTGDTIRVEQYSQLAAQMKKIGEELALRCNGVVKVKKRIVDENGRAIEDGVPGWEFTLSAGGQDIIDPGNGDRVRKSLKATSSANEDRGTA
SWNIMSEQEQQLTLVETQQPGFNLYKRNDKNAVCTETRDGVMKPIEVTNDGEFGFKVKMRAKDKKLSSVSCVVDNYKQPETPPGKLTFKKAQYNGDKIEE
IPGLGGATFEIYPSKGDQPDYSAEALYTIKPGQESIEVKTTGTFFLVETKAPKGLNLLAQPVKFEISVDETTKKYKISVGSTSSGQVQAKGEGDKMILTV
ADTTAGELPKTGGYGVGLVGLIGVALAGAGFLLGRRKTA*
>0|WP_010935677.1|1|1|spaI|spaI||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minorsubunit_SpaI
MKKTHLFRIPAATTAAVALLLASGPIASADSRTITGATDGLNISDIRCDTGSLTLIKRPPAAFEGVDKADLPAGTIDGATFTLRRIEGIDLTKQAGWDAA
KALTIQEARSRLSDEVWKAVSGRDGRAVVTGLPMGVYLVSETPPAKRPAEYRRTLDFLITVPAGMRTADGNVASWSCDVQVFTKDTDDLPPTVPVFPPVE
SSVTLTPSSPVPGTPKTPGKPDLPEKFRKEVTDRLGNTGANVLGIAALGIALAIAGFLVQRRKKNEENG*
>0|WP_010935680.1|1|1|spaH|spaH||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaH
MSVKRTTIGRRLACAVGASALILSGAGFAAPALAQTEPSANVAAANYGNIDFTKQGRIIINKHLHQEDGSSAVGDPATGDYKGTPTEGLNGVTFKIYKIK
NIDLSKQEGWEAVNKYNIPADPTKDDNLKEVDTVTTANGGKATTKDLSVAAYVVYETDAPADVIDRASPFVVTLPYPDTTANDDRLGERTNTWLYDVNVF
PKNGKTKLNKTVEMQNTYGLNVGSEVHFPVTAVIPKVAEDKVFKYFQVIDPMDPRFDQESLGVESVTLNGKALESDDYTVAGDGSRVIVSLTSQGLGKLK
NAAGQELKVVFKGKLKSLDNGKPEEFGRILNQAYVYSDTESNPGQSTPPSTPPIWPVTTPPDTPPVTTTPPGGTPLVKQFWGDLRILKVDKGDGKTGLEG
AKFKIYPATKPYPENGTCGPEYDKNAPVQVNGTGNGNDLVVTSDKNGNVHFEGLFVSDDQNDPGKSAAQRCYVLVETEAPTGFVTPKDGTVFPVAVKIGQ
TATTTYDAKVENVKRDTPDLPLTGGKGVLFLMIAGGLLLLVAVGAGFVFVRRINE*
>0|WP_010935681.1|1|1|spaG|spaG||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaG
MTAWSLKGRNDFLQRLAALAAVPIVAVSLMAGSVSAAAQDEVGLDAALADSDSPPLEPKPQDLESVEGEEEAPAPEELESIAGTFATAAAMGTTTGSGNL
KCDEGYYYAIHKWGEVLQLQEQNGAWGRNPINRQSYSFRSGSSPSGDWNGLGVSKDGSTVYAYNRYRYENSSTYGWVVTQVQIGDIVNGQRNVSNVYRLE
TPSGLIAGAVAPDGTYYFGGYRFSGDVKAAKKAVYTNNPPVTNWTYSYDSSLGYYYYNGTDGRRYYYSSAGFWSNSGEFLGRYWSPAVAERSREFVLYKY
SGGQITTVGIVPISTPVQNSTSAVNGDFAFDSSGNMYLLFHEGGTTNVQLIPVLADQLEGTGTTRQIIPQPTTTIQVKPNDLGPSYFNGVSFTVDGYLMI
EDGTVNARQSTAYFYKVDPTTGNVVAQETFNNDGTHEVYMDRDGGYAAWLYGGQSDLASCATFSTLELKKTFPTGRAAKADQVELQISRGTGTNTNEKLA
WTSTTGEVIGEQPVVAGPVIASPDEVFRLREVPSVSEGTGKTRLSYYKSNLTCKDTLTGAFLPSTYIKSVDNTSSTKREWDVTIPSYSAWQLQCMYENTP
VKGDLAWTKVGKESPEDTSVIELGGSVWSLLDSNKQVITSPISYEKIKDCDANTDAGCLKVDKNKSSAKFLVTDLPYGTYYLREDQAPDGYKPLSDPIKF
SFDVKGMTILESPAELDQRWKELAKKNTDTNVVDLGQILNLKPQGTVTWKKTDAATGAILHDSTWKLTRLTDASGQKIAAEALVDGRDQFEIKDKTSKTE
DATRDTNEATGEFKVEDLPYGKWRLEEVEAPDGYRIVGANAYEFTVNKAKKDVEAVPGGAIKNYKARIEWSKVDAADEKNALAGSEWQLTGPDGKELSVK
DCVASECVPEVNDIDPGKGKFSVAELGNGEYTLKETKAPEGYLVTEKTYTFKITDTGYSIDGNTEKKFPVPSSGTNYIPLSIGGITNDKDAAKVHWSKVD
AAATSTLLGGSEWSIVPKTSTGALDEVNAIKVTDLVAGARAEKDTNTAAGEFTVELPLGTYVLKETKAPAGYLVSDEAKNGKEFTLTRDNLTKVLEFGSV
TNKKIEAGVTWKKVDATDATKLLGGSEWTITPYKADGTLDTANAKKVVDKTPNAAGVLDEDPVAGQFKINALPAGKYRLEETKAPEGYVLADAASAGVDF
TVDDSKAGAVVDLDAIKNERMDGVVTWTKLDQSGKALHSSEWTIVKVTADRKPIDGAVAIQVTDCQADAASKCTEPDIDPAGGAFKVDGLEFGEYKLVES
KAPAGFVVDTTEHYFTISKNGEEIVAGAFKNELGKGVKLPLTGGLGAFKFLIAGGLLGVLSAAMGGAHVMRRRNS*
>0|WP_010934130.1|1|1|srtB|srtB||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtB
MTDQPPTPNTADATPPRQDKKLNTNAIIAVVLILAGLGVLLYPVLATQWNNYQQSRAAEAYSQLEKGVPPEVLNKAWEEAQQYNANLGDIDPGDAWTSSD
DESSSAYQRYLNYLSALNETEAMGRIVLPSIKSDLPIFHGTSDRVLARGVGHLYGTDLPVGAPGELGEDGVIPPAPPEGRLSALSAHTGLQNATLWDNLI
QIKKGDPVYVAAAGEKLKYEVRNIEVVTPDKTSLLRRTSNKDQVTLITCTPYGINTHRLIITAERVPMDPQGESAFDGQGTTWQWWMWAILAAAAIIVLL
LIRWWWKNFRKQEGEEGPTTSGAGGTTES*
>0|WP_010934133.1|1|1|srtC|srtC||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtC
MDHTLSTDVEPEKEPRRANSAKTSPVLAAVLVILGVLVMLYPVTSTLWNNHLATKAAQEYAKLEKNAPQEVKNTQWERAHEYNENRTTGPIFDPWLARFD
ENNSDYQEYLDQLDANDAMARLIFPKIKADLPIFHGTDNDTLQKGLGHLFGSDLPVGGKGMHSVITGHTGLANSTMFDHLNKAEKGDTFYVQVSGEKLKY
VVDQIKVVLPTETEDLRPEQGKDYITLITCTPYGINTHRLMVRGHQVPLAPEDHEVFDKNHGAGWQWWMYTLLAAAAVVLLLLLRWLLKNKRDGESQETT
EMMNDEGAGADD*
>0|WP_010935678.1|1|1|srtE|srtE||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtE
MAMNSETAGKEPNVVSTDAKHSTGTSSNAGTGESSAKKKAQTAIAAIVMLLCGLLGLVILFYPVVSTQLNNYEQSKLARQFGADAAQADPAVVAAALDAA
HAYNDSLENGPLQDPWTGGDSTKDPAYQAYEKLLGEYPAMAQISIPAISVNLPIYHGTSDATLLKGVGHLYGTALPVGGLGTRSVLTAHSGIQKSTFFDN
LEKVKKGDAIYVRNIGETLKYQVRDIEIIRPAEIDRIQPIPDRDLITLVTCTPYGINTHRLLVTAERVPMEPGEADRAFAGDGIVWQWWMKLAIGVLVVI
LLLTGWLIIRILRARKFAKKTAGADAAKSVEPGDIEASLSASAAEESQ*
>0|WP_010935679.1|1|1|srtD|srtD||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtD
MVTTASPRSTGPDNPDAQPKRRWVFSGLALFACITALAGLMLGLYPSTAAWFNAREQAKLVDLYDSKIENATPLSAEQLLELAHRYNDRLTVGAALDPWA
NVPRGAGKEDGDGMAYKDQLRVDRTDVMARIRIPSIKVDLPIYHGTSDNTLKKGAGHLEGTSLPVGGPRTHSVITAHRGLAEATMFTNLNKVGVGDRFTI
EVMGEVLTYEVRETRVVSPEDTRFLQTQDDRDLVTLVTCTPLGINTHRILVTAERITPTPQSDIDAARQASQIGFPWWAVIFAVGFSFIALFFWRSGYMI
PPKKKEEDIESEADGDEL*
>0|WP_010935545.1|1|1|sapA|sapA||1|SapADE|SapADE|Surface-anchored_pilus_proteins_sapA
MKFGFTKHRSWLSHAALPAVLFLAITSTAITTPVDATPITSTNIDTVVEDAAENPPLDQESAALPTEVTDDNLQHVKLIITNNMISAGFATIERKNGESE
FYGHDQVLIDGTEVSDSSVYSAPATENQGDLITINFAGLSIQSGQTISFSYRSSATSQNDTWLPSEANAFKYLAAPAESAIANTDEREAQSFLQGNFELS
......
data/resistance/Corynebacterium_diphtheriae/fam_Cd.tab
+ 4
− 27
View file @ f76f45ce
......@@ -11,15 +11,11 @@ narJ MOLECULAR_NITRATE narJ - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 1 MOLECULAR_BIOV
narH MOLECULAR_NITRATE narH - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 1 MOLECULAR_BIOVAR MOLECULAR_BIOVAR narIJHK narIJHK Corynebacterium diphtheriae nitrate reductase subunit beta narH
narG MOLECULAR_NITRATE narG - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 1 MOLECULAR_BIOVAR MOLECULAR_BIOVAR narG narG Corynebacterium diphtheriae nitrate reductase subunit alpha narG
narK MOLECULAR_NITRATE narK - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 1 MOLECULAR_BIOVAR MOLECULAR_BIOVAR narIJHK narIJHK Corynebacterium diphtheriae MFS transporter narK
pbp2m AMR pbp2m - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 1 AMR AMR BETA-LACTAM PENICILLIN Corynebacterium diphtheriae beta-lactam resistant_PBP2M
VIRULENCE_Corynebacterium VIRULENCE - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 VIRULENCE VIRULENCE
tox VIRULENCE_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 VIRULENCE VIRULENCE
tox_pseudotuberculosis tox tox_pseudotuberculosis - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE TOXIN TOXIN Corynebacterium pseudotuberculosis diphtheria toxin precursor tox
tox_ulcerans tox tox_ulcerans - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE TOXIN TOXIN Corynebacterium ulcerans diphtheria toxin precursor tox
tox_diphtheriae tox tox_diphtheriae - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE TOXIN TOXIN Corynebacterium diphtheriae diphtheria toxin precursor tox
pld VIRULENCE_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 VIRULENCE VIRULENCE
pld_pseudotuberculosis pld pld_pseudotuberculosis - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Corynebacterium pseudotuberculosis Phospholipase D
pld_ulcerans pld pld_ulcerans - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Corynebacterium ulcerans Phospholipase D
tox_pseudotuberculosis VIRULENCE_Corynebacterium tox_pseudotuberculosis - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE TOXIN TOXIN Corynebacterium pseudotuberculosis diphtheria toxin precursor tox
tox_ulcerans VIRULENCE_Corynebacterium tox_ulcerans - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE TOXIN TOXIN Corynebacterium ulcerans diphtheria toxin precursor tox
pld_pseudotuberculosis VIRULENCE_Corynebacterium pld_pseudotuberculosis - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Corynebacterium pseudotuberculosis Phospholipase D
pld_ulcerans VIRULENCE_Corynebacterium pld_ulcerans - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Corynebacterium ulcerans Phospholipase D
rbp VIRULENCE_Corynebacterium rbp - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Putative ribosome binding protein
rbp-like VIRULENCE_Corynebacterium rbp-like - 0.00 0.00 60.00 80.00 90.00 70.00 90.00 25.00 1 VIRULENCE VIRULENCE OTHER_TOXINS OTHER_TOXINS Ribosome binding protein like
REGULATOR ALL - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 REGULATOR REGULATOR
......@@ -39,25 +35,6 @@ DIP2014 ADHESIN_Corynebacterium DIP2014 - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.0
RhuM ADHESIN_Corynebacterium RhuM - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN VIRULENCE/ADHESIN VIRULENCE/ADHESIN RhuM-like protein
cpp ADHESIN_Corynebacterium cpp - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN VIRULENCE/ADHESIN VIRULENCE/ADHESIN Endoglycosidase of the EndoE family
DIP2093 ADHESIN_Corynebacterium DIP2093 - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2 ADHESIN ADHESIN VIRULENCE/ADHESIN VIRULENCE/ADHESIN Csh family fibrillar adhesin-related protein
cbpA ADHESIN_Corynebacterium cbpA - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN VIRULENCE/ADHESIN VIRULENCE/ADHESIN Cna B-type domain-containing protein
DIP0543 ADHESIN_Corynebacterium DIP0543 - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN VIRULENCE/ADHESIN VIRULENCE/ADHESIN Putative exo-sialidase NanH
SpaA-type_pili ADHESIN_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 ADHESIN ADHESIN
spaA SpaA-type_pili spaA - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaA-type_pili_diphtheriae SpaA-type_pili_diphtheriae SpaA-type pili major subunit SpaA
srtA SpaA-type_pili srtA - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaA-type_pili_diphtheriae SpaA-type_pili_diphtheriae Fimbrial associated sortase srtA
spaB SpaA-type_pili spaB - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaA-type_pili_diphtheriae SpaA-type_pili_diphtheriae SpaA-type pili minor subunit SpaB
spaC SpaA-type_pili spaC - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaA-type_pili_diphtheriae SpaA-type_pili_diphtheriae SpaA-type pili minor subunit SpaC
SpaD-type_pili ADHESIN_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 ADHESIN ADHESIN
srtB SpaD-type_pili srtB - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaD-type_pili_diphtheriae SpaD-type_pili_diphtheriae Fimbrial associated sortase srtB
spaD SpaD-type_pili spaD - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaD-type_pili_diphtheriae SpaD-type_pili_diphtheriae SpaD-type pili minor subunit SpaD
srtC SpaD-type_pili srtC - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaD-type_pili_diphtheriae SpaD-type_pili_diphtheriae Fimbrial associated sortase srtC
spaE SpaD-type_pili spaE - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaD-type_pili_diphtheriae SpaD-type_pili_diphtheriae SpaD-type pili minor subunit SpaE
spaF SpaD-type_pili spaF - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaD-type_pili_diphtheriae SpaD-type_pili_diphtheriae SpaD-type pili minor subunit SpaF
SpaH-type_pili ADHESIN_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 ADHESIN ADHESIN
spaI SpaH-type_pili spaI - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaH-type_pili_diphtheriae SpaH-type_pili_diphtheriae SpaH-type pili minorsubunit SpaI
srtE SpaH-type_pili srtE - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaH-type_pili_diphtheriae SpaH-type_pili_diphtheriae Fimbrial associated sortase srtE
srtD SpaH-type_pili srtD - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaH-type_pili_diphtheriae SpaH-type_pili_diphtheriae Fimbrial associated sortase srtD
spaH SpaH-type_pili spaH - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaH-type_pili_diphtheriae SpaH-type_pili_diphtheriae SpaH-type pili minor subunit SpaH
spaG SpaH-type_pili spaG - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SpaH-type_pili_diphtheriae SpaH-type_pili_diphtheriae SpaH-type pili minor subunit SpaG
Surface-anchored pilus proteins ADHESIN_Corynebacterium - - 0 0 0.00 0.00 0.00 0.00 0.00 0.00 0 ADHESIN ADHESIN
sapA Surface-anchored pilus proteins sapA - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SapADE_diphtheriae SapADE_diphtheriae Surface-anchored pilus proteins sapA
sapD Surface-anchored pilus proteins sapD - 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1 ADHESIN ADHESIN SapADE_diphtheriae SapADE_diphtheriae Surface-anchored pilus proteins sapD
......
data/resistance/download_sequence_prot.sh
+ 16
− 16
View file @ f76f45ce
......@@ -13,7 +13,7 @@ esearch -db protein -query WP_010934342.1| efetch -format fasta | sed '1d' | sed
esearch -db protein -query WP_004566793.1| efetch -format fasta | sed '1d' | sed '1i >490703392|WP_004566793.1|1|1|narK|narK||2|narIJHGK|narIJHGK|Corynebacterium_diphtheriae_MFS_transporter_narK' >> AMRProt_Cd
esearch -db protein -query WP_014654963.1| efetch -format fasta | sed '1d' | sed '1i >504467861|WP_014654963.1|1|1|tox_pseudotuberculosis|tox_pseudotuberculosis||2|TOXIN|TOXIN|Corynebacterium_pseudotuberculosis_diphtheria_toxin_precursor_tox' >> AMRProt_Cd
esearch -db protein -query WP_014835773.1| efetch -format fasta | sed '1d' | sed '1i >504648671|WP_014835773.1|1|1|tox_ulcerans|tox_ulcerans||2|TOXIN|TOXIN|Corynebacterium_ulcerans_diphtheria_toxin_precursor_tox' >> AMRProt_Cd
esearch -db protein -query WP_003850266.1| efetch -format fasta | sed '1d' | sed '1i >489946959|WP_003850266.1|1|1|tox_diphtheriae|tox_diphtheriae||1|TOXIN|TOXIN|Corynebacterium_diphtheriae_diphtheria_toxin_precursor_tox' >> AMRProt_Cd
#esearch -db protein -query WP_003850266.1| efetch -format fasta | sed '1d' | sed '1i >489946959|WP_003850266.1|1|1|tox_diphtheriae|tox_diphtheriae||1|TOXIN|TOXIN|Corynebacterium_diphtheriae_diphtheria_toxin_precursor_tox' >> AMRProt_Cd
esearch -db protein -query ARS60925.1| efetch -format fasta | sed '1d' | sed '1i >1196085886|ARS60925.1|1|1|dtxR_pseudotuberculosis|dtxR_pseudotuberculosis||1|METAL_ION-REGULATED|REGULATOR|Corynebacterium_pseudotuberculosis_diphtheria_toxin_repressor_DtxR' >> AMRProt_Cd
esearch -db protein -query BAM27641.1| efetch -format fasta | sed '1d' | sed '1i >393403149|BAM27641.1|1|1|dtxR_ulcerans|dtxR_ulcerans||2|METAL_ION-REGULATED|REGULATOR|Corynebacterium_ulcerans_diphtheria_toxin_repressor_DtxR' >> AMRProt_Cd
esearch -db protein -query CAE49945.1| efetch -format fasta | sed '1d' | sed '1i >38200261|CAE49945.1|1|1|dtxR_diphtheriae|dtxR_diphtheriae||2|METAL_ION-REGULATED|REGULATOR|Corynebacterium_diphtheriae_diphtheria_toxin_repressor_DtxR' >> AMRProt_Cd
......@@ -30,23 +30,23 @@ esearch -db protein -query WP_080669054.1| efetch -format fasta | sed '1d' | sed
esearch -db protein -query AEG82501.1| efetch -format fasta | sed '1d' | sed '1i >334697704|AEG82501.1|1|1|cpp|cpp||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Endoglycosidase_of_the_EndoE_family' >> AMRProt_Cd
esearch -db protein -query WP_010935564.1| efetch -format fasta | sed '1d' | sed '1i >499238024|WP_010935564.1|1|1|DIP2093|DIP2093||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Csh_family_fibrillar_adhesin-related_protein' >> AMRProt_Cd
esearch -db protein -query WP_158306310.1| efetch -format fasta | sed '1d' | sed '1i >1789759809|WP_158306310.1|1|1|cbpA|cbpA||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Cna_B-type_domain-containing_protein' >> AMRProt_Cd
esearch -db protein -query WP_010934371.1| efetch -format fasta | sed '1d' | sed '1i >499236831|WP_010934371.1|1|1|DIP0543|DIP0543||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Putative_exo-sialidase_NanH' >> AMRProt_Cd
#esearch -db protein -query WP_010934371.1| efetch -format fasta | sed '1d' | sed '1i >499236831|WP_010934371.1|1|1|DIP0543|DIP0543||1|VIRULENCE/ADHERENCE|VIRULENCE/ADHERENCE|Putative_exo-sialidase_NanH' >> AMRProt_Cd
esearch -db protein -query CAE50071.1| efetch -format fasta | sed '1d' | sed '1i >0|CAE50071.1|1|1|DIP1546|DIP1546||2|VIRULENCE/ADHESIN|VIRULENCE/ADHESIN|Conserved_hypothetical_protein' >> AMRProt_Cd
esearch -db protein -query CAE50545.1| efetch -format fasta | sed '1d' | sed '1i >0|CAE50545.1|1|1|DIP2014|DIP2014||2|VIRULENCE/ADHESIN|VIRULENCE/ADHESIN|Putative_membrane-anchored_protein' >> AMRProt_Cd
esearch -db protein -query WP_010935504.1| efetch -format fasta | sed '1d' | sed '1i >499237964|WP_010935504.1|1|1|spaA|spaA||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaA' >> AMRProt_Cd
esearch -db protein -query WP_010935503.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935503.1|1|1|srtA|srtA||1|SpaA-type_pili|SpaA-type_pili|Fimbrial_associated_sortase_srtA' >> AMRProt_Cd
esearch -db protein -query WP_010935502.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935502.1|1|1|spaB|spaB||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaB' >> AMRProt_Cd
esearch -db protein -query WP_010935501.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935501.1|1|1|spaC|spaC||1|spaA-type_pili|spaA-type_pili|SpaA-type_pili_major_subunit_SpaC' >> AMRProt_Cd
esearch -db protein -query WP_010934132.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934132.1|1|1|spaD|spaD||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaD' >> AMRProt_Cd
esearch -db protein -query WP_010934134.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934134.1|1|1|spaE|spaE||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaE' >> AMRProt_Cd
esearch -db protein -query WP_010934135.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934135.1|1|1|spaF|spaF||1|SpaD-type_pili|SpaD-type_pili|SpaD-type_pili_minor_subunit_SpaF' >> AMRProt_Cd
esearch -db protein -query WP_010935677.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935677.1|1|1|spaI|spaI||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minorsubunit_SpaI' >> AMRProt_Cd
esearch -db protein -query WP_010935680.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935680.1|1|1|spaH|spaH||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaH' >> AMRProt_Cd
esearch -db protein -query WP_010935681.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935681.1|1|1|spaG|spaG||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaG' >> AMRProt_Cd
esearch -db protein -query WP_010934130.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934130.1|1|1|srtB|srtB||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtB' >> AMRProt_Cd
esearch -db protein -query WP_010934133.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934133.1|1|1|srtC|srtC||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtC' >> AMRProt_Cd
esearch -db protein -query WP_010935678.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935678.1|1|1|srtE|srtE||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtE' >> AMRProt_Cd
esearch -db protein -query WP_010935679.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935679.1|1|1|srtD|srtD||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtD' >> AMRProt_Cd
#esearch -db protein -query WP_010935504.1| efetch -format fasta | sed '1d' | sed '1i >499237964|WP_010935504.1|1|1|spaA|spaA||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaA' >> AMRProt_Cd
#esearch -db protein -query WP_010935503.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935503.1|1|1|srtA|srtA||1|SpaA-type_pili|SpaA-type_pili|Fimbrial_associated_sortase_srtA' >> AMRProt_Cd
#esearch -db protein -query WP_010935502.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935502.1|1|1|spaB|spaB||1|SpaA-type_pili|SpaA-type_pili|SpaA-type_pili_major_subunit_SpaB' >> AMRProt_Cd
#esearch -db protein -query WP_010935501.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935501.1|1|1|spaC|spaC||1|spaA-type_pili|spaA-type_pili|SpaA-type_pili_major_subunit_SpaC' >> AMRProt_Cd
#esearch -db protein -query WP_010934132.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934132.1|1|1|spaD|spaD||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaD' >> AMRProt_Cd
#esearch -db protein -query WP_010934134.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934134.1|1|1|spaE|spaE||1|SpaD-type_pili|SpaD-type_pili|SpaD-type pili minor subunit SpaE' >> AMRProt_Cd
#esearch -db protein -query WP_010934135.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934135.1|1|1|spaF|spaF||1|SpaD-type_pili|SpaD-type_pili|SpaD-type_pili_minor_subunit_SpaF' >> AMRProt_Cd
#esearch -db protein -query WP_010935677.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935677.1|1|1|spaI|spaI||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minorsubunit_SpaI' >> AMRProt_Cd
#esearch -db protein -query WP_010935680.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935680.1|1|1|spaH|spaH||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaH' >> AMRProt_Cd
#esearch -db protein -query WP_010935681.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935681.1|1|1|spaG|spaG||1|SpaH-type_pili|SpaH-type_pili|SpaH-type_pili_minor_subunit_SpaG' >> AMRProt_Cd
#esearch -db protein -query WP_010934130.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934130.1|1|1|srtB|srtB||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtB' >> AMRProt_Cd
#esearch -db protein -query WP_010934133.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934133.1|1|1|srtC|srtC||1|SpaD-type_pili|SpaD-type_pili|Fimbrial_associated_sortase_srtC' >> AMRProt_Cd
#esearch -db protein -query WP_010935678.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935678.1|1|1|srtE|srtE||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtE' >> AMRProt_Cd
#esearch -db protein -query WP_010935679.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935679.1|1|1|srtD|srtD||1|SpaH-type_pili|SpaH-type_pili|Fimbrial_associated_sortase_srtD' >> AMRProt_Cd
esearch -db protein -query WP_010935545.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010935545.1|1|1|sapA|sapA||1|SapADE|SapADE|Surface-anchored_pilus_proteins_sapA' >> AMRProt_Cd
esearch -db protein -query WP_010934306.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_010934306.1|1|1|sapD|sapD||1|SapADE|SapADE|Surface-anchored_pilus_proteins_sapD' >> AMRProt_Cd
esearch -db protein -query WP_011272780.1| efetch -format fasta | sed '1d' | sed '1i >0|WP_011272780.1|1|1|sapE|sapE||1|SapADE|SapADE|Surface-anchored_pilus_proteins_sapE' >> AMRProt_Cd
......
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