mat_peptide 819..2763
https://www.ncbi.nlm.nih.gov/protein/QIA20043.1?from=819&to=2763
/product="nsp3"
/note="former nsp1; conserved domains are: N-terminal
acidic (Ac), predicted phosphoesterase, papain-like
proteinase, Y-domain, transmembrane domain 1 (TM1),
adenosine diphosphate-ribose 1''-phosphatase (ADRP);
nsp3 ORIGIN 1 aptkvtfgdd tvievqgyks vnitfelder idkvlnekcs aytvelgtev nefacvvada 61 viktlqpvse lltplgidld ewsmatyylf desgefklas hmycsfyppd edeeegdcee 121 eefepstqye ygteddyqgk plefgatsaa lqpeeeqeed wldddsqqtv gqqdgsednq 181 tttiqtivev qpqlemeltp vvqtievnsf sgylkltdnv yiknadivee akkvkptvvv 241 naanvylkhg ggvagalnka tnnamqvesd dyiatngplk vggscvlsgh nlakhclhvv 301 gpnvnkgedi qllksayenf nqhevllapl lsagifgadp ihslrvcvdt vrtnvylavf 361 dknlydklvs sflemksekq veqkiaeipk eevkpfites kpsveqrkqd dkkikacvee 421 vtttleetkf ltenlllyid ingnlhpdsa tlvsdiditf lkkdapyivg dvvqegvlta 481 vviptkkagg ttemlakalr kvptdnyitt ypgqglngyt veeaktvlkk cksafyilps 541 iisnekqeil gtvswnlrem lahaeetrkl mpvcvetkai vstiqrkykg ikiqegvvdy 601 garfyfytsk ttvaslintl ndlnetlvtm plgyvthgln leeaarymrs lkvpatvsvs 661 spdavtayng yltsssktpe ehfietisla gsykdwsysg qstqlgiefl krgdksvyyt 721 snpttfhldg evitfdnlkt llslrevrti kvfttvdnin lhtqvvdmsm tygqqfgpty 781 ldgadvtkik phnshegktf yvlpnddtlr veafeyyhtt dpsflgryms alnhtkkwky 841 pqvngltsik wadnncylat alltlqqiel kfnppalqda yyrarageaa nfcalilayc 901 nktvgelgdv retmsylfqh anldsckrvl nvvcktcgqq qttlkgveav mymgtlsyeq 961 fkkgvqipct cgkqatkylv qqespfvmms appaqyelkh gtftcaseyt gnyqcghykh 1021 itsketlyci dgalltksse ykgpitdvfy kensytttik pvtykldgvv cteidpkldn 1081 yykkdnsyft eqpidlvpnq pypnasfdnf kfvcdnikfa ddlnqltgyk kpasrelkvt 1141 ffpdlngdvv aidykhytps fkkgakllhk pivwhvnnat nkatykpntw circlwstkp 1201 vetsnsfdvl ksedaqgmdn lacedlkpvs eevvenptiq kdvlecnvkt tevvgdiilk 1261 pannslkite evghtdlmaa yvdnssltik kpnelsrvlg lktlathgla avnsvpwdti 1321 anyakpflnk vvstttnivt rclnrvctny mpyfftlllq lctftrstns rikasmptti 1381 akntvksvgk fcleasfnyl kspnfsklin iiiwflllsv clgsliysta algvlmsnlg 1441 mpsyctgyre gylnstnvti atyctgsipc svclsgldsl dtypsletiq itissfkwdl 1501 tafglvaewf layilftrff yvlglaaimq lffsyfavhf isnswlmwli inlvqmapis 1561 amvrmyiffa sfyyvwksyv hvvdgcnsst cmmcykrnra trvecttivn gvrrsfyvya 1621 nggkgfcklh nwncvncdtf cagstfisde vardlslqfk rpinptdqss yivdsvtvkn 1681 gsihlyfdka gqktyerhsl shfvnldnlr anntkgslpi nvivfdgksk ceessaksas 1741 vyysqlmcqp illldqalvs dvgdsaevav kmfdayvntf sstfnvpmek lktlvataea 1801 elaknvsldn vlstfisaar qgfvdsdvet kdvveclkls hqsdievtgd scnnymltyn 1861 kvenmtprdl gacidcsarh inaqvakshn ialiwnvkdf mslseqlrkq irsaakknnl 1921 pfkltcattr qvvnvvttki alkgg //
sUOMALAINEN ON MUUTEN SAMANLAINEN, PAITSI YHDESSÄ KOHTAAN ON MERKATTU VAIN
xxxxxxx ( tnympyf) ja xxxxx (inlvg), joka olen merkannut näkyviin. Jätän näitä
jaksoja näkyviin, jos myöehmmin tulee lisätietoja
Vertailua varten ORF1ap pitkästä replikasista jakso 819-27639
819 ap tkvtfgddtv ievqgyksvn 841 itfelderid kvlnekcsay tvelgtevne facvvadavi ktlqpvsell tplgidldew 901 smatyylfde sgefklashm ycsfyppded eeegdceeee fepstqyeyg teddyqgkpl 961 efgatsaalq peeeqeedwl dddsqqtvgq qdgsednqtt tiqtivevqp qlemeltpvv 1021 qtievnsfsg ylkltdnvyi knadiveeak kvkptvvvna anvylkhggg vagalnkatn 1081 namqvesddy iatngplkvg gscvlsghnl akhclhvvgp nvnkgediql lksayenfnq 1141 hevllaplls agifgadpih slrvcvdtvr tnvylavfdk nlydklvssf lemksekqve 1201 qkiaeipkee vkpfiteskp sveqrkqddk kikacveevt ttleetkflt enlllyidin 1261 gnlhpdsatl vsdiditflk kdapyivgdv vqegvltavv iptkkaggtt emlakalrkv 1321 ptdnyittyp gqglngytve eaktvlkkck safyilpsii snekqeilgt vswnlremla 1381 haeetrklmp vcvetkaivs tiqrkykgik iqegvvdyga rfyfytsktt vaslintlnd 1441 lnetlvtmpl gyvthglnle eaarymrslk vpatvsvssp davtayngyl tsssktpeeh 1501 fietislags ykdwsysgqs tqlgieflkr gdksvyytsn pttfhldgev itfdnlktll 1561 slrevrtikv fttvdninlh tqvvdmsmty gqqfgptyld gadvtkikph nshegktfyv 1621 lpnddtlrve afeyyhttdp sflgrymsal nhtkkwkypq vngltsikwa dnncylatal 1681 ltlqqielkf nppalqdayy rarageaanf calilaycnk tvgelgdvre tmsylfqhan 1741 ldsckrvlnv vcktcgqqqt tlkgveavmy mgtlsyeqfk kgvqipctcg kqatkylvqq 1801 espfvmmsap paqyelkhgt ftcaseytgn yqcghykhit sketlycidg alltksseyk 1861 gpitdvfyke nsytttikpv tykldgvvct eidpkldnyy kkdnsyfteq pidlvpnqpy 1921 pnasfdnfkf vcdnikfadd lnqltgykkp asrelkvtff pdlngdvvai dykhytpsfk 1981 kgakllhkpi vwhvnnatnk atykpntwci rclwstkpve tsnsfdvlks edaqgmdnla 2041 cedlkpvsee vvenptiqkd vlecnvktte vvgdiilkpa nnslkiteev ghtdlmaayv 2101 dnssltikkp nelsrvlglk tlathglaav nsvpwdtian yakpflnkvv stttnivtrc 2161 lnrvctnymp yfftlllqlc tftrstnsri kasmpttiak ntvksvgkfc leasfnylks 2221 pnfsklinii iwflllsvcl gsliystaal gvlmsnlgmp syctgyregy lnstnvtiat 2281 yctgsipcsv clsgldsldt ypsletiqit issfkwdlta fglvaewfla yilftrffyv 2341 lglaaimqlf fsyfavhfis nswlmwliin lvqmapisam vrmyiffasf yyvwksyvhv 2401 vdgcnsstcm mcykrnratr vecttivngv rrsfyvyang gkgfcklhnw ncvncdtfca 2461 gstfisdeva rdlslqfkrp inptdqssyi vdsvtvkngs ihlyfdkagq ktyerhslsh 2521 fvnldnlran ntkgslpinv ivfdgkskce essaksasvy ysqlmcqpil lldqalvsdv 2581 gdsaevavkm fdayvntfss tfnvpmeklk tlvataeael aknvsldnvl stfisaarqg 2641 fvdsdvetkd vveclklshq sdievtgdsc nnymltynkv enmtprdlga cidcsarhin 2701 aqvakshnia liwnvkdfms lseqlrkqir saakknnlpf kltcattrqv vnvvttkial 2761 kgg
Suomalainen sekvenssi 819.. 2763
819 ap tkvtfgddtv ievqgyksvn
841 itfelderid kvlnekcsay tvelgtevne facvvadavi ktlqpvsell tplgidldew
901 smatyylfde sgefklashm ycsfyppded eeegdceeee fepstqyeyg teddyqgkpl
961 efgatsaalq peeeqeedwl dddsqqtvgq qdgsednqtt tiqtivevqp qlemeltpvv
1021 qtievnsfsg ylkltdnvyi knadiveeak kvkptvvvna anvylkhggg vagalnkatn
1081 namqvesddy iatngplkvg gscvlsghnl akhclhvvgp nvnkgediql lksayenfnq
1141 hevllaplls agifgadpih slrvcvdtvr tnvylavfdk nlydklvssf lemksekqve
1201 qkiaeipkee vkpfiteskp sveqrkqddk kikacveevt ttleetkflt enlllyidin
1261 gnlhpdsatl vsdiditflk kdapyivgdv vqegvltavv iptkkaggtt emlakalrkv
1321 ptdnyittyp gqglngytve eaktvlkkck safyilpsii snekqeilgt vswnlremla
1381 haeetrklmp vcvetkaivs tiqrkykgik iqegvvdyga rfyfytsktt vaslintlnd
1441 lnetlvtmpl gyvthglnle eaarymrslk vpatvsvssp davtayngyl tsssktpeeh
1501 fietislags ykdwsysgqs tqlgieflkr gdksvyytsn pttfhldgev itfdnlktll
1561 slrevrtikv fttvdninlh tqvvdmsmty gqqfgptyld gadvtkikph nshegktfyv
1621 lpnddtlrve afeyyhttdp sflgrymsal nhtkkwkypq vngltsikwa dnncylatal
1681 ltlqqielkf nppalqdayy rarageaanf calilaycnk tvgelgdvre tmsylfqhan
1741 ldsckrvlnv vcktcgqqqt tlkgveavmy mgtlsyeqfk kgvqipctcg kqatkylvqq
1801 espfvmmsap paqyelkhgt ftcaseytgn yqcghykhit sketlycidg alltksseyk
1861 gpitdvfyke nsytttikpv tykldgvvct eidpkldnyy kkdnsyfteq pidlvpnqpy
1921 pnasfdnfkf vcdnikfadd lnqltgykkp asrelkvtff pdlngdvvai dykhytpsfk
1981 kgakllhkpi vwhvnnatnk atykpntwci rclwstkpve tsnsfdvlks edaqgmdnla
2041 cedlkpvsee vvenptiqkd vlecnvktte vvgdiilkpa nnslkiteev ghtdlmaayv
2101 dnssltikkp nelsrvlglk tlathglaav nsvpwdtian yakpflnkvv stttnivtrc
2161 lnrvcxxxxx xxftlllqlc tftrstnsri kasmpttiak ntvksvgkfc leasfnylks
2221 pnfsklinii iwflllsvcl gsliystaal gvlmsnlgmp syctgyregy lnstnvtiat
2281 yctgsipcsv clsgldsldt ypsletiqit issfkwdlta fglvaewfla yilftrffyv
2341 lglaaimqlf fsyfavhfis nswlmwlixx xxxmapisam vrmyiffasf yyvwksyvhv
2401 vdgcnsstcm mcykrnratr vecttivngv rrsfyvyang gkgfcklhnw ncvncdtfca
2461 gstfisdeva rdlslqfkrp inptdqssyi vdsvtvkngs ihlyfdkagq ktyerhslsh
2521 fvnldnlran ntkgslpinv ivfdgkskce essaksasvy ysqlmcqpil lldqalvsdv
2581 gdsaevavkm fdayvntfss tfnvpmeklk tlvataeael aknvsldnvl stfisaarqg
2641 fvdsdvetkd vveclklshq sdievtgdsc nnymltynkv enmtprdlga cidcsarhin
2701 aqvakshnia liwnvkdfms lseqlrkqir saakknnlpf kltcattrqv vnvvttkial
2761 kgg
Tietoa 2018:
Antiviral Res. 2018 Jan;149:58-74. doi: 10.1016/j.antiviral.2017.11.001. Epub 2017 Nov 8.
Nsp3 of coronaviruses: Structures and functions of a large multi-domain protein.
Abstract
The multi-domain non-structural protein 3 (Nsp3) is the largest protein encoded by the coronavirus
(CoV) genome, with an average molecular mass of about 200 kD. Nsp3 is
an essential component of the replication/transcription complex. It
comprises various domains, the organization of which differs between CoV
genera, due to duplication or absence of some domains. However, eight
domains of Nsp3 exist in all known CoVs:
- the ubiquitin-like domain 1 (Ubl1),
- the Glu-rich acidic domain (also called "hypervariable region"),
- a macrodomain (also named "X domain"),
- the ubiquitin-like domain 2 (Ubl2),
- the papain-like protease 2 (PL2pro),
- the Nsp3 ectodomain (3Ecto, also called "zinc-finger domain"),
- as well as the domains Y1
- and CoV-Y of unknown functions.
- In addition, the two transmembrane regions, TM1 and TM2, exist in all CoVs.
Copyright © 2017 Elsevier B.V. All rights reserved.
KEYWORDS:
Innate immunity; Macrodomain; Nucleic-acid binding domain; Papain-like protease; Structural biology; Ubiquitin-like domain- PMID:
- 29128390
- DOI:
- 10.1016/j.antiviral.2017.11.001
-
Zhongguo Zhong Yao Za Zhi. 2020 Mar;45(6):1219-1224. doi: 10.19540/j.cnki.cjcmm.20200216.401.[Study on screening potential traditional Chinese medicines against 2019-nCoV based on Mpro and PLP].
[Article in Chinese]With the rapid outbreak of COVID-19, traditional Chinese medicine(TCM) has been playing an active role against the epidemic. However, the screening of TCM is limited by the development cycle and laboratory conditions, which greatly limits the screening speed. This study established optimization docking models and virtual screening to discovery potential active herbs for the prevention and treatment of the novel coronavirus based on molecular docking technology. The crystal structures of 3 CL protease(Mpro) and papain-like protease(PLP) were obtained from PDB database and homologous modeling respectively, and were used to conduct virtual screening of TCMD 2009 database by CDOCKER program. The ingredients scored in the top 100 were selected respectively, and the candidate herbs were ranked by the numbers of hit molecules. Based on Mpro inhibitors screening, 12 322 potential active components were obtained, and the representative active components included
aster pentapeptide A,
ligustrazine,
salvianolic acid B, etc.,
and Zingiberis Rhizoma Recens,
Asteris Radix et Rhizoma,
Notoginseng Radix et Rhizoma,
Chuanxiong Rhizoma,
Salviae Miltiorrhizae Radix et Rhizoma,
Zingiberis Rhizoma,
Dianthi Herba,
Rhei Radix et Rhizoma,
Cistanches Herba
were obtained.
While 11 294 potential active ingredients were obtained by PLP inhibitor screening, representative active ingredients included
gingerketophenol,
ginkgol alcohol,
ferulic acid, etc.,
and Codonopsis Radix,
Notopterygii Rhizoma et Radix,
Zingiberis Rhizoma Recens,
Ginkgo Semen,
Chuanxiong Rhizoma,
Trichosanthis Fructus,
Paeoniae Radix Alba,
Psoraleae Fructus,
Sophorae Flavescentis Radix,
Notoginseng Radix et Rhizoma,
Angelicae Sinensis Radix
were chosen.
By combining the diagnosis and treatment scheme of Hunan province's and angiotensin converting enzyme 2(ACE2) inhibitors screening from literature, present study also discussed the rational application of candidate herbs to this epidemic situation.
Trichosanthis Fructus obtained by PLP inhibitors screening
and Fritillaria verticillata obtained by ACE2 inhibitors screening were parts of the Sangbei Zhisou Powder and Xiaoxianxiong Decoction, which might be applicable to the syndromes of cough and dyspnea.
Rhei Radix et Rhizoma screened by Mpro and Trichosanthis Fructus screened by PLP were contained in Maxing Shigan Decoction and Xuanbai Chengqi Decoction, and could be applied to the syndromes of epidemic virus blocking lung.
Mori Folium,
Lonicerae Japonicae Flos
and Forsythiae Fructus
obtained by ACE2 inhibitors screening were included in the Sangju Decoction and Yinqiaosan, which might be applicable to the syndromes of warm pathogen attacking lung and cough and dyspnea.
The results of this study are intended to provide a reference for the further development of traditional Chinese medicine to deal with the new epidemic.KEYWORDS:
2019-nCoV; 3CL hydrolase; angiotensin converting enzyme 2; molecular docking; papain-like protease; traditional Chinese medicine- PMID:
- 32281328
- DOI:
- 10.19540/j.cnki.cjcmm.20200216.401
- [Indexed for MEDLINE]
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