GenomeNet

Database: Pfam
Entry: bCoV_SUD_M
LinkDB: bCoV_SUD_M
Original site: bCoV_SUD_M 
#=GF ID   bCoV_SUD_M
#=GF AC   PF11633.10
#=GF DE   Betacoronavirus single-stranded poly(A) binding domain
#=GF PI   Nsp3; SUD-M; bCoV_SUD-M;
#=GF AU   Pollington J;0000-0002-8158-8998
#=GF AU   Chuguransky S;0000-0002-0520-0736
#=GF SE   pdb_2jwi
#=GF GA   24.00 24.00;
#=GF TC   24.20 25.20;
#=GF NC   23.80 19.40;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
#=GF TP   Domain
#=GF CL   CL0223
#=GF RN   [1]
#=GF RM   12927536
#=GF RT   Unique and conserved features of genome and proteome of
#=GF RT   SARS-coronavirus, an early split-off from the coronavirus group
#=GF RT   2 lineage. 
#=GF RA   Snijder EJ, Bredenbeek PJ, Dobbe JC, Thiel V, Ziebuhr J, Poon
#=GF RA   LL, Guan Y, Rozanov M, Spaan WJ, Gorbalenya AE; 
#=GF RL   J Mol Biol. 2003;331:991-1004.
#=GF RN   [2]
#=GF RM   29128390
#=GF RT   Nsp3 of coronaviruses: Structures and functions of a large
#=GF RT   multi-domain protein.
#=GF RA   Lei J, Kusov Y, Hilgenfeld R;
#=GF RL   Antiviral Res. 2018;149:58-74.
#=GF RN   [3]
#=GF RM   19052085
#=GF RT   Nuclear magnetic resonance structure shows that the severe acute
#=GF RT   respiratory syndrome coronavirus-unique domain contains a
#=GF RT   macrodomain fold.
#=GF RA   Chatterjee A, Johnson MA, Serrano P, Pedrini B, Joseph JS,
#=GF RA   Neuman BW, Saikatendu K, Buchmeier MJ, Kuhn P, Wuthrich K;
#=GF RL   J Virol. 2009;83:1823-1836.
#=GF DR   INTERPRO; IPR024375;
#=GF DR   SO; 0000417; polypeptide_domain;
#=GF CC   This domain identifies non-structural protein NSP3, the product
#=GF CC   of ORF1a in group 2 coronavirus. It is found in human SARS
#=GF CC   coronavirus polyprotein 1a and 1ab, and in related coronavirus
#=GF CC   polyproteins [1]. NSP3 binds to viral RNA, nucleocapsid protein,
#=GF CC   as well as other viral proteins, and participates in polyprotein
#=GF CC   processing [2]. The domain exhibits a macrodomain fold
#=GF CC   containing the nsp3 residues 528 to 648, with a flexibly
#=GF CC   extended N-terminal tail from residues 513 to 527 and a
#=GF CC   C-terminal flexible tail of residues 649 to 651. SUD-M(527-651)
#=GF CC   binds single-stranded poly(A); the contact area with this RNA on
#=GF CC   the protein surface, and the electrophoretic mobility shift
#=GF CC   assays confirm that SUD-M has higher affinity for purine bases
#=GF CC   than for pyrimidine bases [3].
#=GF SQ   38
#=GS R9QTB2_SARS/1319-1461       AC R9QTB2.1
#=GS U5KNA9_9BETC/1345-1473      AC U5KNA9.1
#=GS B8Q8S4_SARS/1327-1469       AC B8Q8S4.1
#=GS T2B9U0_MERS/1280-1396       AC T2B9U0.1
#=GS A0A0K1YZY7_SARS/1327-1469   AC A0A0K1YZY7.1
#=GS A3EXC0_BCHK4/1346-1454      AC A3EXC0.1
#=GS R1A_SARS2/1351-1493         AC P0DTC1.1
#=GS R1AB_BCHK9/1205-1339        AC P0C6W5.1
#=GS A0A0U1WHG0_SARS/1322-1464   AC A0A0U1WHG0.1
#=GS T2B9I2_MERS/1280-1396       AC T2B9I2.1
#=GS A0A1B3Q5W8_9BETC/1249-1384  AC A0A1B3Q5W8.1
#=GS F2YDB2_SARS/1327-1469       AC F2YDB2.1
#=GS U5LR11_9BETC/1345-1473      AC U5LR11.1
#=GS B8Q8S5_SARS/1327-1469       AC B8Q8S5.1
#=GS R1AB_BCHK5/1364-1478        AC P0C6W4.1
#=GS R1A_SARS/1327-1469          AC P0C6U8.1
#=GS R1A_SARS/1327-1469          DR PDB; 2KQV A; 5-129;
#=GS R1A_SARS/1327-1469          DR PDB; 2W2G A; 509-651;
#=GS R1A_SARS/1327-1469          DR PDB; 2W2G B; 509-651;
#=GS E0XIZ2_9BETC/1317-1459      AC E0XIZ2.1
#=GS Q6UZF5_SARS/1327-1469       AC Q6UZF5.1
#=GS R1AB_SARS/1327-1469         AC P0C6X7.1
#=GS R1AB_SARS/1327-1469         DR PDB; 2JZD A; -1-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2WCT C; 509-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2JZF A; -4-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2WCT B; 509-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2JZE A; -1-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2WCT A; 509-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2WCT D; 509-651;
#=GS R1AB_SARS/1327-1469         DR PDB; 2RNK A; -4-651;
#=GS B8Q8U6_SARS/1327-1469       AC B8Q8U6.1
#=GS B8Q8U7_SARS/1327-1469       AC B8Q8U7.1
#=GS E0ZN59_BCHK9/1176-1314      AC E0ZN59.1
#=GS A3EXE7_BCHK5/1363-1477      AC A3EXE7.1
#=GS R1A_BC279/1333-1475         AC P0C6F5.1
#=GS R1AB_BC279/1333-1475        AC P0C6V9.1
#=GS A0A0U1WHK4_SARS/1327-1469   AC A0A0U1WHK4.1
#=GS R1A_BCHK4/1336-1444         AC P0C6T4.1
#=GS R1AB_BCHK4/1336-1444        AC P0C6W3.1
#=GS F2YDB1_SARS/1327-1469       AC F2YDB1.1
#=GS R1A_BCHK5/1364-1478         AC P0C6T5.1
#=GS A0A088DIE1_9BETC/1460-1602  AC A0A088DIE1.1
#=GS A0A0U1UZ65_BCHK4/1346-1454  AC A0A0U1UZ65.1
#=GS R1A_BCHK9/1205-1339         AC P0C6T6.1
#=GS A0A0K1Z0N1_SARS/1327-1469   AC A0A0K1Z0N1.1
#=GS R1AB_SARS2/1351-1493        AC P0DTD1.1
#=GS E0ZN51_BCHK9/1196-1335      AC E0ZN51.1
#=GS A3EXA2_BCHK4/1336-1444      AC A3EXA2.1
#=GS A3EXI9_BCHK9/1199-1335      AC A3EXI9.1
R9QTB2_SARS/1319-1461                  ......................SAFYVLPSETPNEKEEILGTVSWNLREMLAHAEETRKLMPVCMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
U5KNA9_9BETC/1345-1473                 ..........vvpqgltfsfeg------------------------MKSAVAKAKEYGFTMFICVDNKQNVKLL--KTLGVKA..DKKqST.V.N.GV.RYYCYTSEDTVPNLVAVANK-QKGIVALPLGYVTHGFDLMQAAAIVKMVTVPYVCLLANKEQLAILQ------gdvlks...
B8Q8S4_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
T2B9U0_MERS/1280-1396                  ...............ltfsydg------------------------LRGAIRKAKDYGFTVFVCTDNSANTKVL--RNKGVDY..TKKfLT.V.D.GV.QYYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLL----------------ankeqeail
A0A0K1YZY7_SARS/1327-1469              ......................SEFYVLPSETPNAKEEVLGTVSWNLREMLAHAEETRKLMPICMDIRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLITMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
A3EXC0_BCHK4/1346-1454                 aknygftcficteysanvkflr-------------------------------------------------------SKGVDT..TKK.IQ.TvD.GV.SYYLYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMN------sdvai....
R1A_SARS2/1351-1493                    ......................SAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKI..QEG.VV.D.Y.GA.RFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSS.........
R1AB_BCHK9/1205-1339                   ...........eisspgdcntv----------------LVDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSP..KEG.LFsS.N.GY.EFYGYSRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTVPHTVVVPSESSVPLYRAYF---ngv......
A0A0U1WHG0_SARS/1322-1464              ......................SAFYVLPSKTPNVKDEILGTVSWNLREMLAHAEETRKLMPICMDIRAIMATIQRKYKGIRI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLITMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
T2B9I2_MERS/1280-1396                  ...............ltfsydg------------------------LRGAIRKAKDYGFTVFVCTDNSANTKVL--RNKGVDY..TKKfLT.V.D.GV.QYYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLL----------------ankeqeail
A0A1B3Q5W8_9BETC/1249-1384             ......paepvvassqshlkdv--------------------LCMSFSQMIQYAKSHGLLTPVVLDYTAF-SKVLRKYEP---..KSG.LY.E.F.GGqKFYGYSRETPLEDVSKALNELGLPLIMIPFGYIVNGAQLSLSAINMRMLQVEHTVVLPSESCVPLYRNYYVS-g........
F2YDB2_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
U5LR11_9BETC/1345-1473                 ..........vvpqgltfsfeg------------------------MKSAVAKAKEYGFTMFICVDNKQNVKLL--KTLGVKA..DKKqST.V.N.GV.RYYCYTSEDTVPNLVAVANK-QKGIVALPLGYVTHGFDLMQAAAIVKMVTVPYVCLLANKEQLAILQ------gdvlks...
B8Q8S5_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1AB_BCHK5/1364-1478                   ......rgiirnaksfgftcfi-----------------------------------------CTDQSANAKLLK--GRGVDLtkKTQ.TV.D.-.GV.KYYLYSSKDPLTDIITAANAC-KGICAMPIGYVTHGLDLAQAGQQVKKITVPYVCLLASKDQVPILNS-----dvav.....
R1A_SARS/1327-1469                     ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
#=GR R1A_SARS/1327-1469          SS    ......................SEEEE---S-------GGGEE---HHHHHHHHHHH--EEEEETT-HHHHHHHHHHTTT---..-SE.EE.E.S.SS.EEEEE-SSS-HHHHHHHHHHH-S-EEE--TTBTTTSB-HHHHHHHHTT--S-EEEE-SSHHHHHHHHHHHHS-.........
E0XIZ2_9BETC/1317-1459                 ......................SVFYILPSANVNAKEEVLGTVAWNLREMLAHAEETRKVMPVCMDVRAIISTIQRKYKGIGI..QEG.LV.D.Y.KV.RFYFYSSKTPIARVISNLNSLGEPLITMPLGYVTHGLNLEESARYMRSVKVPVVVSVSSPDAVTSYNGYVTS-a........
Q6UZF5_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1AB_SARS/1327-1469                    ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
#=GR R1AB_SARS/1327-1469         SS    ......................SEEEE-----------GGCEE---HHHHHHHHHHHT-EEEEETT-HHHHHHHHHHSTTS--..-SE.EE.E.S.SS.EEEEE-TTS-HHHHHHHHHHHT--EEES-TTBTTTSB-HHHHHHHHTT--S-EEEE-SSHHHHHHHHHHHHS-.........
B8Q8U6_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
B8Q8U7_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
E0ZN59_BCHK9/1176-1314                 .........vaqsevapsdasg--------------SVLVDVVSMSFSAMLNHGKEKGLLIPVVIDYPAFTKVLKR----FSP..KEG.YF.TcE.GY.QFYGYSRDTPLQHVSKALNSFGKQLIMIPFGFIVNGHTLAVSAVSMRSLTVEHTVVVPSDSSVPLYKAYFNG-s........
A3EXE7_BCHK5/1363-1477                 ......rgiirnaksfgftcfi-----------------------------------------CTDQSANAKLLK--GRGVDLtkKTQ.TV.D.-.GV.KYYLYSSKDSLADIITAANAC-KGICAMPIGYVTHGLDLAQAGQQVKKITVPYVCLLASKDQVPILNS-----dvav.....
R1A_BC279/1333-1475                    ......................SVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKGIKV..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1AB_BC279/1333-1475                   ......................SVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKGIKV..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
A0A0U1WHK4_SARS/1327-1469              ......................SAFYVLPSETPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKV..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFTLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1A_BCHK4/1336-1444                    aknygftcficteysanvkflr-------------------------------------------------------TKGVDT..TKK.IQ.TvD.GV.SYYLYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMN------sdvai....
R1AB_BCHK4/1336-1444                   aknygftcficteysanvkflr-------------------------------------------------------TKGVDT..TKK.IQ.TvD.GV.SYYLYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMN------sdvai....
F2YDB1_SARS/1327-1469                  ......................SAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1A_BCHK5/1364-1478                    ......rgiirnaksfgftcfi-----------------------------------------CTDQSANAKLLK--GRGVDLtkKTQ.TV.D.-.GV.KYYLYSSKDPLTDIITAANAC-KGICAMPIGYVTHGLDLAQAGQQVKKITVPYVCLLASKDQVPILNS-----dvav.....
A0A088DIE1_9BETC/1460-1602             ....................di---YLVKTSVDNDVQLLCPTVTYNVKQMLARAKQEKLLMCVNIDNKSFTRNVVHLAKNFQH..KPG.CQ.TvD.GY.EFYCYTEKQPLSSIIDELNALGKDIITTPLGCITHQLSLPESAAKMRALKCKFLAVCTSPGAEKQFCA-----aftaa....
A0A0U1UZ65_BCHK4/1346-1454             aknygftcficteysanvkflr-------------------------------------------------------TKGVDT..TKK.IQ.TvD.GV.SYYLYSARDALTDVIAAANGCP-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMN------sdvai....
R1A_BCHK9/1205-1339                    ...........eisspgdcntv----------------LVDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSP..KEG.LFsS.N.GY.EFYGYSRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTVPHTVVVPSESSVPLYRAYF---ngv......
A0A0K1Z0N1_SARS/1327-1469              ......................SEFYVLPSETPNAKEEVLGTVSWNLREMLAHAEETRKLMPICMDIRAIMATIQRKYKGIKI..QEG.IV.D.Y.GV.RFFFYTSKEPVASIITKLNSLNEPLITMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSS.........
R1AB_SARS2/1351-1493                   ......................SAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKI..QEG.VV.D.Y.GA.RFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSS.........
E0ZN51_BCHK9/1196-1335                 .....kevpasdsailkettpl-----------------VDVVCLSFSAMLQRGKAQGLLTPVVIDYPAFNKVLKR-Y---EP..KEG.LY.T.FdGQ.DFYGYSRDTPIEDVSKALNALGRSLLMIPFGFIVNGQSLAVSAVSMRKLTVPHTVVLPSESCVPLYRAYFNG-s........
A3EXA2_BCHK4/1336-1444                 aknygftcficteysanvkflr-------------------------------------------------------TKGVDT..TKK.IQ.TvD.GV.SYYLYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMN------sdvai....
A3EXI9_BCHK9/1199-1335                 .....vvaepevveqstplvdv--------------------LCLSFSAMLQHGKKQGLLTPVVIDYPAFNKVLKR-Y---EP..KEG.LY.T.HeGQ.DFYGYSRDTPIQDVSKALNALGRPVLMIPFGFIVNGQSLAVSAVSMRTLTVPHTVVLPSESCVPLYRAYFNG-s........
#=GC SS_cons                           ......................SEEEE---S-------GGCEE---HHHHHHHHHHHT-EEEEETT-HHHHHHHHHHTTTS--..-SE.EE.E.S.SS.EEEEE-TTS-HHHHHHHHHHHTS-EEES-TTBTTTSB-HHHHHHHHTT--S-EEEE-SSHHHHHHHHHHHHS-.........
#=GC seq_cons                          ......................................llssVshsh+pMLs+AcEpthLhPlChDhpAhhtslpR+hKGlch..pEG.ls.-...GV.+FahYTSK-PlsslIspLNuLscsLlsMPlGYVTHGhsLtpAApsMRuLKsPtVVsluS.-uVshYNuYhsu..........
//
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