#=GF ID bCoV_NSP1
#=GF AC PF11501.12
#=GF DE Betacoronavirus replicase NSP1
#=GF PI Nsp1;
#=GF AU Pollington J;0000-0002-8158-8998
#=GF AU Finn RD;0000-0001-8626-2148
#=GF AU Chuguransky S;0000-0002-0520-0736
#=GF SE pdb_2gdt
#=GF GA 25.00 25.00;
#=GF TC 29.90 97.80;
#=GF NC 23.60 22.80;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch -Z 75585367 -E 1000 --cpu 4 HMM pfamseq
#=GF TP Family
#=GF RN [1]
#=GF RM 17202208
#=GF RT Novel beta-barrel fold in the nuclear magnetic resonance
#=GF RT structure of the replicase nonstructural protein 1 from the
#=GF RT severe acute respiratory syndrome coronavirus.
#=GF RA Almeida MS, Johnson MA, Herrmann T, Geralt M, Wuthrich K;
#=GF RL J Virol. 2007;81:3151-3161.
#=GF RN [2]
#=GF RM 22174690
#=GF RT SARS coronavirus nsp1 protein induces template-dependent
#=GF RT endonucleolytic cleavage of mRNAs: viral mRNAs are resistant to
#=GF RT nsp1-induced RNA cleavage.
#=GF RA Huang C, Lokugamage KG, Rozovics JM, Narayanan K, Semler BL,
#=GF RA Makino S;
#=GF RL PLoS Pathog. 2011;7:e1002433.
#=GF RN [3]
#=GF RM 19838190
#=GF RT A two-pronged strategy to suppress host protein synthesis by
#=GF RT SARS coronavirus Nsp1 protein.
#=GF RA Kamitani W, Huang C, Narayanan K, Lokugamage KG, Makino S;
#=GF RL Nat Struct Mol Biol. 2009;16:1134-1140.
#=GF RN [4]
#=GF RM 25432065
#=GF RT Coronavirus nonstructural protein 1: Common and distinct
#=GF RT functions in the regulation of host and viral gene expression.
#=GF RA Narayanan K, Ramirez SI, Lokugamage KG, Makino S;
#=GF RL Virus Res. 2015;202:89-100.
#=GF RN [5]
#=GF RM 23035226
#=GF RT Severe acute respiratory syndrome coronavirus protein nsp1 is a
#=GF RT novel eukaryotic translation inhibitor that represses multiple
#=GF RT steps of translation initiation.
#=GF RA Lokugamage KG, Narayanan K, Huang C, Makino S;
#=GF RL J Virol. 2012;86:13598-13608.
#=GF DR INTERPRO; IPR021590;
#=GF DR SO; 0100021; polypeptide_conserved_region;
#=GF CC This entry represents the non structural protein NSP1 from
#=GF CC Betacoronavirus NSP1 is the N-terminal cleavage product from the
#=GF CC viral replicase that mediates RNA replication and processing
#=GF CC [1]. Structurally, the protein consists of a mixed
#=GF CC parallel/antiparallel 6-stranded beta barrel with an alpha helix
#=GF CC covering one end of the barrel and another helix alongside the
#=GF CC barrel [1]. NSP1 binds to the 40S ribosomal subunit and inhibits
#=GF CC translation, and it also induces a template-dependent
#=GF CC endonucleolytic cleavage of host mRNAs [2,3]. NSP1 also
#=GF CC suppresses the host innate immune functions by inhibiting type I
#=GF CC interferon expression and host antiviral signalling pathways
#=GF CC [4,5].
#=GF SQ 30
#=GS A3EXI9_BCHK9/7-145 AC A3EXI9.1
#=GS R1AB_BCHK4/22-165 AC P0C6W3.1
#=GS R1A_BCHK9/7-145 AC P0C6T6.1
#=GS R9QTB2_SARS/7-144 AC R9QTB2.1
#=GS R1AB_BCHK5/22-165 AC P0C6W4.1
#=GS A0A2Z4EVM4_9NIDO/7-145 AC A0A2Z4EVM4.1
#=GS Q6UZF1_SARS/7-144 AC Q6UZF1.1
#=GS A3EXH3_BCHK9/7-145 AC A3EXH3.1
#=GS Q0Q485_SARS/7-144 AC Q0Q485.1
#=GS R1A_SARS/7-144 AC P0C6U8.1
#=GS R1AB_BCHK9/7-145 AC P0C6W5.1
#=GS A0A0U1WHL2_BCHK5/22-165 AC A0A0U1WHL2.1
#=GS U5LR11_9BETC/22-165 AC U5LR11.1
#=GS A0A088DIE1_9BETC/7-140 AC A0A088DIE1.1
#=GS R1AB_SARS/7-144 AC P0C6X7.1
#=GS E0ZN59_BCHK9/7-145 AC E0ZN59.1
#=GS R1A_BCHK5/22-165 AC P0C6T5.1
#=GS E0ZN51_BCHK9/7-145 AC E0ZN51.1
#=GS R1A_SARS2/7-144 AC P0DTC1.1
#=GS R1A_BCHK4/22-165 AC P0C6T4.1
#=GS R1AB_SARS2/7-144 AC P0DTD1.1
#=GS E0ZN35_BCHK9/7-145 AC E0ZN35.1
#=GS T2B9I2_MERS/22-163 AC T2B9I2.1
#=GS Q6UZF5_SARS/7-144 AC Q6UZF5.1
#=GS T2B9U0_MERS/22-163 AC T2B9U0.1
#=GS A0A1B3Q5W8_9BETC/7-145 AC A0A1B3Q5W8.1
#=GS A0A023YA54_MERS/22-165 AC A0A023YA54.1
#=GS A0A0K1YZY7_SARS/7-144 AC A0A0K1YZY7.1
#=GS A0A0K1Z0N1_SARS/7-144 AC A0A0K1Z0N1.1
#=GS U5KNA9_9BETC/22-165 AC U5KNA9.1
A3EXI9_BCHK9/7-145 .p-PKLKSMVTVTFKWIDPNI.MPSVTGWDMPMQEALEVVKNELRKpEPQLVFVPKYL.CHTPLIGEDRIVVTDSTfratNMGWV----PIRELAFDENR....IRFGRSG-TFGVLLPMqDAKYIMGHIDIDMRK...YGVGAGGDKDEPLLWD.......
R1AB_BCHK4/22-165 ..NEKRSDHVACTVPLCDTDDmACKLTPWFEDGETAFNQVSSILKE.KGKILFVPMHMqRAMKFLPGPRVYLVERL....TGGMLSKHFLVNQLAYKDQVgaamMRTTLNAKPLGMFFPY.DSSLETGEYTFLLRK...NGLGGQLFRERPWDR-k......
R1A_BCHK9/7-145 .p-PKLKSMVVTTLKWCDPFA.NPNVTGWDIPIEEALEYAKQQLRTpEPQLVFVPYYL.SHAPGISGDRVVITDSIwyatNFGWQ----PIRELAMDKDG....VRYGRGG-THGVLLPMqDPSFIMGDIDIQIRK...YGIGANSPPDVLPLWD.......
R9QTB2_SARS/7-144 gv--SEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEALSEAREHLKN.-GTCGLVELEK.GVLPQLEQPYVFIKRSDaqstNHGHK-----VVELVAELNG....VQYGRSGTTLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
R1AB_BCHK5/22-165 ..TEKRTDHVSLKASLCDAGDlVLKISPWFMDGESAYKHVSEQLSK.GSKLLFVPQTLkGFIRHLPGPRVYLVERL....TGGTYSDPFMVNQLAYQNAAgegvIGTTLQGKRVGMFFPF.DADLVTGEFQFLLRK...KGFGGNRFRDAPWDYN.......
A0A2Z4EVM4_9NIDO/7-145 .p-PKLKSMTTVRLKWIDPIA.YPNFRRWETPIEEAMDFAAKELLKpEPQLCFVPAQF.ADSKYVGADKVIITHSThrceTLGWQ----PIQELAFIKDN....IRFGRGG-VQGVLLPMqEEHAIFGTVEITIRK...HGKGARSFRDPTPLWD.......
Q6UZF1_SARS/7-144 .g-VNEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEALSEAREHLKN.-GTCGLVELEK.GVLPQLEQPYVFIKRSDalstNHGHK-----VVELVAEMDG....IQYGRSGITLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
A3EXH3_BCHK9/7-145 .p-PKLKSMVTVTFKWIDPNI.MPSVTGWDVSMQEALELVKAELRKpTPKLVFVPNYL.CHTPLIGRDRIVITDSIyratVMGWI----PIRELAFDENN....IRCGRSG-TFGVLLPEqDPKYVMGEVDIDMRK...YGVGACSEKPVPLLWD.......
Q0Q485_SARS/7-144 .g-VNEKTHVQLSLPVLQVSD.-VLVRGFGDTVEEALAEAREHLKN.-GTCGLVELEK.GVLRQLEEPYVFIKRSEalstTHGHK-----VVELVAEMNG....IQFGRSGTTLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
R1A_SARS/7-144 .g-VNEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEALSEAREHLKN.-GTCGLVELEK.GVLPQLEQPYVFIKRSDalstNHGHK-----VVELVAEMDG....IQYGRSGITLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
R1AB_BCHK9/7-145 .p-PKLKSMVVTTLKWCDPFA.NPNVTGWDIPIEEALEYAKQQLRTpEPQLVFVPYYL.SHAPGISGDRVVITDSIwyatNFGWQ----PIRELAMDKDG....VRYGRGG-THGVLLPMqDPSFIMGDIDIQIRK...YGIGANSPPDVLPLWD.......
A0A0U1WHL2_BCHK5/22-165 ..TEKRTDHVSLKAPLCDAGDlVLKISPWFMDGESAYKHVSEQLSK.GSKLLFVPQTLkGFIRHLPGPRVYLVERL....TGGTYSDPFMVNQLAYQNAAgegvIGTTLQGKRVGMFFPF.DADLVTGEFQFLLRK...KGFGGNRFRDAPWDYN.......
U5LR11_9BETC/22-165 ..NEKRHDHVALTVPCCGTEAkVTALSPWFMDGMLAYETVKEMLLK.GEQLLFAPSNLsGYIKFLPGPRVYLVERL....TGGTYSEPFIVNQLAFSDEQdgpmMGTTLQGKPIGFFFPF.DEELVTGTYTFKLRK...NGLGGQLFREVPWFEN.......
A0A088DIE1_9BETC/7-140 .e-LNQKTHFSVELPWIQIGE.-NPIKPWSVTPAEALNTVYAAIAE.-GKAAFIPPFK.GMHKYLPELCVFLVR--....NHGNPTRPFDLQELAVREGD....VNYGRSGETVGAIVPL.DGQEPYGTITIQLRR...RGKNAGGVYAWTNTRD.......
R1AB_SARS/7-144 .g-VNEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEALSEAREHLKN.-GTCGLVELEK.GVLPQLEQPYVFIKRSDalstNHGHK-----VVELVAEMDG....IQYGRSGITLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
E0ZN59_BCHK9/7-145 .p-PKLKSMVTVTFKWIDPNI.MPSVTGWDVSMQEALELVKAELRKpTPKLVFVPNYL.CHTPLIGRDRIVITDSIyratVMGWI----PIRELAFDENN....IRCGRSG-TFGVLLPEqDPKYVMGEVDIDMRK...YGVGACSEKPVPLLWD.......
R1A_BCHK5/22-165 ..TEKRTDHVSLKASLCDAGDlVLKISPWFMDGESAYKHVSEQLSK.GSKLLFVPQTLkGFIRHLPGPRVYLVERL....TGGTYSDPFMVNQLAYQNAAgegvIGTTLQGKRVGMFFPF.DADLVTGEFQFLLRK...KGFGGNRFRDAPWDYN.......
E0ZN51_BCHK9/7-145 .p-PKLRSMVTITLKWIDPNI.MPSVTGWDMPMCEALEIVKDELRKpEPDLVFVPKYL.CHTPLIGRNRVVITDAT....YRTTVLGRIPIRELAYDESE....TRYGRSG-TYGVLLPMqDSKYIMGSIDIDMRK...YGAGAGSDRPEPMLWD.......
R1A_SARS2/7-144 gf--NEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEVLSEARQHLKD.-GTCGLVEVEK.GVLPQLEQPYVFIKRSDartaPHGHV-----MVELVAELEG....IQYGRSGETLGVLVPH.VGEIPVAYRKVLLRKngnKGAGGHSYGADLKSF-d......
R1A_BCHK4/22-165 ..NEKRSDHVACTVPLCDTDDmACKLTPWFEDGETAFNQVSSILKE.KGKILFVPMHMqRAMKFLPGPRVYLVERL....TGGMLSKHFLVNQLAYKDQVgaamMRTTLNAKPLGMFFPY.DSSLETGEYTFLLRK...NGLGGQLFRERPWDR-k......
R1AB_SARS2/7-144 gf--NEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEVLSEARQHLKD.-GTCGLVEVEK.GVLPQLEQPYVFIKRSDartaPHGHV-----MVELVAELEG....IQYGRSGETLGVLVPH.VGEIPVAYRKVLLRKngnKGAGGHSYGADLKSF-d......
E0ZN35_BCHK9/7-145 .p-SKLRSMVTITLKWIDPNI.MPSVTGWDMPMCEALEIVKDELRKpEPDLVFVPKYL.CHTPLIGRNRVVITDATyrttVLGWI----PIRELAYDESE....TRYGRSG-TYGVLLPMqDSKYIMGSIDIDMRK...YGAGAGSDRPEPMLWD.......
T2B9I2_MERS/22-163 .s-EKHQDHVSLTVPLCGSGNlVEKLSPWFMDGENAYEVVKAMLLK.KEPLLYVPIRLaGHTRHLPGPRVYLVERL....IACEN--PFMVNQLAYSSSAngslVGTTLQGKPIGMFFPY.DIELVTGKQNILLRK...YGRGGYHYT-------pfhyerd
Q6UZF5_SARS/7-144 .g-VNEKTHVQLSLPVLQVRD.-VLVRGFGDSVEEALSEAREHLKN.-GTCGLVELEK.GVLPQLEQPYVFIKRSDalstNHGHK-----VVELVAEMDG....IQYGRSGITLGVLVPH.VGETPIAYRNVLLRKngnKGAGGHSYGIDLKSYD.......
T2B9U0_MERS/22-163 .s-EKHQDHVSLTVPLCGSGNlVEKLSPWFMDGENAYEVVKAMLLK.KEPLLYVPIRLaGHTRHLPGPRVYLVERL....IACEN--PFMVNQLAYSSSAngslVGTTLQGKPIGMFFPY.DIELVTGKQNILLRK...YGRGGYHYT-------pfhyerd
A0A1B3Q5W8_9BETC/7-145 ..TNKLRSMVSITLDWIDPRN.VPRLTNWEMPLQEAAEYVKRELSKpNPDVVFVPNYL.LDSAQIPQNRVVITNSVwrcyEMGWK----PVREIAFDLDG....VRFGRGG-THGVLLPRqPPQYICGTVSIELRK...YGVGGGAEIFIPKLWD.......
A0A023YA54_MERS/22-165 ..NEKRQDHVSQTVSFCGAGDlAMKLSPWFADGETACNTVKATLKN.KGKILFVPVKLaSFVKHLPGPRVYLVERL....TGGNYSDPFMVSQLAYSSSArdaiVGTTLQGKPVGYFFPY.DPALETGDYTFLLRK...DGFGGNYFRKPRPNPD.......
A0A0K1YZY7_SARS/7-144 .g-VNEKTHVQLSLPVLQVGD.-VLVRGFGDTVEEALTEAREHLKN.-GTCGLVELEK.GVLRQLEEPYVFIKRSEalstTHGHK-----VVELVAEMNG....IQFGRSGTTLGVLVPH.VGETPIAYRNVLLRKsgnKGAGGHSYGIDLKSYD.......
A0A0K1Z0N1_SARS/7-144 .g-VNEKTHVQLSLPVLQVGD.-VLVRGFGDTVEEALTEAREHLKN.-GTCGLVELEK.GVLRQLEEPYVFIKRSEalstTHGHK-----VVELVAEMNG....IQFGRSGTTLGVLVPH.VGETPIAYRNVLLRKsgnKGAGGHSYGIDLKSYD.......
U5KNA9_9BETC/22-165 ..NEKRHDHVALTVPCCGTEAkVTALSPWFMDGMLAYETVKEMLLK.GEQLLFAPSNLsGYIKFLPGPRVYLVERL....TGGTYSEPFIVNQLAFSDEQdgpmMGTTLQGKPIGFFFPF.DEELVTGTYTFKLRK...NGLGGQLFREVPWFEN.......
#=GC seq_cons .s..Kc+oHVslolPhlssps..stlosWshssEEALpps+ppL+c.tspllFVPhph.Ghh.tLstPRVaIscuhh.s.stGah.....VsELAh-psu....lpaGRuGhTlGVLlPa.DuchshGphslLLRK...pGhGGpuat.s.h.aD.......
//
