#=GF ID   Waikav_capsid_1
#=GF AC   PF12264.12
#=GF DE   Waikavirus capsid protein 1
#=GF PI   VSL_protease; Peptidase_C03;
#=GF AU   Assefa S;0000-0003-2178-533X
#=GF AU   Gavin OL;
#=GF AU   Eberhardt R;0000-0001-6152-1369
#=GF SE   PFAM-B_3208 (release 23.0)
#=GF GA   24.80 24.80;
#=GF TC   25.10 24.80;
#=GF NC   24.20 24.70;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -E 1000 --cpu 4 -Z 75585367 HMM pfamseq
#=GF TP   Family
#=GF CL   CL0055
#=GF RN   [1]
#=GF RM   8460478
#=GF RT   Nucleotide sequence and genomic organization of rice tungro
#=GF RT   spherical virus.
#=GF RA   Shen P, Kaniewska M, Smith C, Beachy RN;
#=GF RL   Virology. 1993;193:621-630.
#=GF RN   [2]
#=GF RM   9683576
#=GF RT   Rice tungro spherical virus polyprotein processing:
#=GF RT   identification of a virus-encoded protease and mutational
#=GF RT   analysis of putative cleavage sites.
#=GF RA   Thole V, Hull R;
#=GF RL   Virology. 1998;247:106-114.
#=GF DR   INTERPRO; IPR024379;
#=GF DR   SO; 0100021; polypeptide_conserved_region;
#=GF CC   The rice tungro spherical waikavirus polyprotein is cleaved into
#=GF CC   7 proteins, including three capsid proteins, by the tungro
#=GF CC   spherical virus-type peptidase Pfam:PF12381. This family
#=GF CC   represents the capsid protein 1 [1,2].
#=GF SQ   14
#=GS A0A1L3KKN4_9VIRU/230-415  AC A0A1L3KKN4.1
#=GS A0A1L3KLV8_9VIRU/280-475  AC A0A1L3KLV8.1
#=GS A0A1L3KH77_9VIRU/38-235   AC A0A1L3KH77.1
#=GS A0A1L3KH90_9VIRU/353-558  AC A0A1L3KH90.1
#=GS A0A1L3KL25_9VIRU/310-498  AC A0A1L3KL25.1
#=GS A0A1L3KJ73_9VIRU/388-581  AC A0A1L3KJ73.1
#=GS A0A1L3KKM1_9VIRU/251-442  AC A0A1L3KKM1.1
#=GS POLG_RTSVA/657-851        AC Q83034.1
#=GS A0A1L3KJ61_9VIRU/293-485  AC A0A1L3KJ61.1
#=GS A0A1L3KHJ0_9VIRU/400-528  AC A0A1L3KHJ0.1
#=GS A0A1S5VYU1_9VIRU/58-248   AC A0A1S5VYU1.1
#=GS A0A1L3KKW5_9VIRU/48-242   AC A0A1L3KKW5.1
#=GS A0A1L3KKS7_9VIRU/44-262   AC A0A1L3KKS7.1
#=GS A0A1L3KMC6_9VIRU/5-159    AC A0A1L3KMC6.1
A0A1L3KKN4_9VIRU/230-415             ...............................fwvenstsda---------------IVNLPHASQMEI.MARQFEWSSDMMQGYEIF......Q.LDLPGE...PI...SG.NM.....S..H.A..AAM.LF.GQ.Y.aYWNG.DMKVKIHINTT..PFHVGKLVFSWyyaqhfD....AN..-A....S..D.R..D..N..I....AS..AIQ.......L---PHVCYD....AS.EGGDAVLEI......PYR...NYR..SMIC.T.R.A..K.qD...D...SL..N.fYMGTLTCRVFNPLTADT.STV--------------------------vdgyihvsilnskft.......................
A0A1L3KLV8_9VIRU/280-475             ........................asaresqtleqltgrwl---------------------------.IAKQFQWKTADIPGTEVA......S.LILPLD...VL...QA.NL.....N..S.P..NVM.PF.FVhH..YARF.DMKVKIQVSSV..RLQIGQLQSNW......F....YG..AS....A..A.D..P..A..V....FE..LYD.......NVYSASQRLHclnsAG.QANDGTIEIpywsafSAC...PIK..TDSL.Q.S.I..T..N...T...SI..L..DLGKLSIKVLNQLKVAS.GVSNEVSVTVWVSIDNVEFRAM-------ksral.................................
A0A1L3KH77_9VIRU/38-235              ..............gycdhkresvmpnlnpfadvsltgfls------------------------RPY.EIGTRTWSTSEARWIVLD......S.FSFPYV...LF...SQ.QP.....-..L.F..SKL.KN.FS.F..FSAR.-IRFCVRINST..RMHAGKLLVAW......Y....PFldNV....G..D.N..R..N..V....MN..IVS.......ASAFPNIIID....AN.TASTCDFVV......PWD...FPK..QFLD.M.S.D..L..K...N...NYhrN..NMGRFVVFVLNPLVVPD.NTP--VQVSYWASFEDVKLAGYT------sfeg..................................
A0A1L3KH90_9VIRU/353-558             ........................dprtvglspvdemsipy---------------------IVQKEA.YTGKFTWDVADTTDTVLQ......R.INVTPV...MF...NR.DTttvtpRaaL.TplAFA.SFpFR.Y..W-RG.SIIFRFQIIAS..AFHRGRIRIAY......E....PA..GS....S..S.Q..P..G..FnqvyST..IVD.......IATNRDVELP....VEwHAHQPWLDV......HKP...NIT..STTD.T.PfG..T..TipmS...PV..T..DNGQLTISVVNKLQAPDpTNTQGVTIAMYVR----------------ggddlefavp............................
A0A1L3KL25_9VIRU/310-498             ...................................amsssm-------------PQIQDIPELTARWL.RITTFMWKGTDE--GLIK......T.IRLPKDavdIL...AD.NP.....S..L.-..ALL.KY.YR.Y..FRGD.-MQVRIVLNAN..RLQVGSLQASW......Y....YS..DK....Q..D.D..KfqL..R....NN..VFS.......GSTLPHVILD....SS.TSNDAEFLL......PFR...HVK..SYIP.T.N.NraD..Q...G...AT..L..DLGVLMIRVLNKLTVTS.STYNACNVSVFIKFVNVKLA---------glaps.................................
A0A1L3KJ73_9VIRU/388-581             .......................hsadqhveiseipwsvkq---------------------VLEREQ.YIGSFTWKVGDVGN--LV......N.IGMPKA...LV...KD.GS.....V..V.Q..QQL.RL.CG.F..LRA-.GVEIRIVMNGN..KFMIGRLIAHV......E....PV..RF....K..N.D..D..G..L....YQ..IQM.......YPNFPHVMLD....AS.VSNSAVLCL......PFC...SIL..SYFC.Q.RqG..AleD...D...SI..N..TIGRLYIDVFNKLQAPE.GGTQQITITVYARFLNPAIH---------qtvfsidkf.............................
A0A1L3KKM1_9VIRU/251-442             .......................scgdgvkqfkyitdrwvp---------------------------.-IYNFDWKDSHTPVSNLM......A.VNFMSL...LTkkgQA.NT.....P..L.Y..NLM.SM.FT.Y..LKCD.-LEFRIHVNST..KFHIGQLLFGF......Y....YS..AAmdskA.eT.R..Y..I..P....AG..II-.......--QLPHVKVN....AN.TANDAILRV......PFK...YYK..SMVC.LkS.K..P..T...T...EV..E..NYGTLVCRVLSKLNMVS.GSSNTVKVNLYVRLVNAEFSG--------lnvrsfqa..............................
POLG_RTSVA/657-851                   .........................................QEAHQDSSVAAAGP--ADEHNAMLQKI.YLGSFKWKVSDGGGSILK......T.FSLPSD...IW...AA.ND.....R..M.K..NFL.SY.FQ.Y..YTCE.GMTFTLTITSI..GLHGGTLLVAW......D....AL..SS....A..T.R..R..G..I....VS..MIQ.......LSNLPSMTLH....AS.GSSIGTLTV......TSP...AIQ..HQIC.T.S.G..S..E...G...SL..A..NLGSLVISVANVLCADS.ASAQELNVNAWVQFNKPKLSYWTAQHSI-a.....................................
A0A1L3KJ61_9VIRU/293-485             .........................qqqvsgqevsmqeqqw-----------------HVRNIMQKPM.LVGVIPWSTKDEVEKLLK......A.YQVPGD...TI...VG.PH.....-..-.Y..NQI.AT.FA.F..WRGH.-PTFRIQLNGT..KFHCGRVIVAF......I....PF..YS....K..K.K..H..TdvL....WS..TNN.......LTSFPHVMLD....AS.ISNSGILNI......PFA...HYQ..TYF-.G.S.V..I..P...S...AY..S..FLGQLVVSVFNRLSTST.TSSQTLDISVWVSYDNCELHQ--------pchahvp...............................
A0A1L3KHJ0_9VIRU/400-528             ..................................salvssl---------------------------.------------------......-.------...--...--.--.....-..-.-..---.--.FR.W..WRG-.NMTIRINFAKT..SFHQGRLLVQY......F....PY..GS....A..E.A..Q..P..V....ED..-VF.......TSIIDISQVD....AE.GVSIDIPSV......MRN...KWY..KVND.D.D.G..S..P...N...TD..T..WTGIVVVSVLNSLIAAP.TVAQEVDLYAWVHWNDLEL----------sep...................................
A0A1S5VYU1_9VIRU/58-248              .........................mekqmpdehwmaakql-----------------------SKPV.VIQHFTWTASSGVGTILN......A.FNFPDV...IS...VI.DS.....I..H.T..ETL.NM.YS.F..FKFNwNLKFQINGT--..KFHSGQLMASF......DpfyqAL..DT....F..T.P..G..N..V....RTfdAVY.......ATGLPNVKLN....AS.SNQPVEMVI......--P...YVH..PRNF.M.T.T..N..S...T...SL..D..NLGRVRISVLNPLRLAT.GASDTLSVTVYLFATDPSVH---------vpiyrhi...............................
A0A1L3KKW5_9VIRU/48-242              .......................veqemaddtwyakqqlmk-------------------------PV.QLAQVAWSTSIARDTDIY......S.VNFPQV...LE...SV.DS.....I..V.L..RTL.RM.YA.F..YKLT.P-CFRVQLNAT..QFHQGQLICSF......D....PF..SI....S..S.R..L..T..T....PT..TLEplfdlfyATGLPNVKIM....AS.ESDAVELCV......PFI...HPR..S-FL.T.T.N..S..T...S...TF..N..NLGAFRITVLNPLIVAD.GTSPSISVTIWVYAKDAQVHVPIYD----htpi..................................
A0A1L3KKS7_9VIRU/44-262              vshskpsvtkpieldnsiwrkmcssqqvteytqlmgrwqry---------------------------.--FSFKWTKDDAFGKAISgpnsktE.FALPID...FI...RD.NL.....E..S.P..NCI.LF.KQ.Y.aYFAS.DLEIKVVVNTT..PFYCGQLQVSF......Y....YG..AS....L..D.KyyK..D..R....AN..VYC.......ASQMPHVIID....AS.QSSEGVLKI......PYR...YYK..PLMG.TfD.R..S..D...D...SL..V.lDMGRLRIFVLSPLKMQD.GDTRTVDATVFIRFVNPHFHAMKP-----rkig..................................
A0A1L3KMC6_9VIRU/5-159               .....................................plss---------------------VIDREY.VLDNFSWLSTSPSGTVLR......T.YSLPGD...II...NS.TSa..gnY..L.K..EKL.NG.FK.Y..YRTK.---FRVGVRIVsnRTMYGRLMVAQ......T....YL..PT....KddT.W..KypG..S....NA..TIT.......LSGYPHMLVS....AT.SSETV----......---...---..----.-.-.-..-..-...-...--..-..-----------------.-----------------------------ymdipfvypqrfadlgvleplvgikitvmnpitsveel
#=GC seq_cons                        ..........................t........h.s..h..........................h.hltpFpWpsscs.sp.lt......s.hshPts...lh...ss.ss........h.h..shl.ph.ap.a..apsp.shph+lplsus..pFHhGpLhsua...........sh..ss....t..s.c..p..s..h....hs..hlp.......hoshPpVhlc....Ao.pussshlpl......sht...hhp..shhs.p.s.s..s..s...s...sh..s..shGpLhlpVlN.Lpsss.usspplslshalph.sspht.........tt.h..................................
//