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Conserved domains on  [gi|545299285|gb|AGW27886|]
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protein I [Human coronavirus HKU1]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
embe-merbe_CoV_ORF8b_protein-I-like super family cl40467
MERS-CoV ORF8b, BECV protein I, and related Embecovirus and Merbecovirus proteins; This family ...
 86-201 8.50e-47

MERS-CoV ORF8b, BECV protein I, and related Embecovirus and Merbecovirus proteins; This family includes the ORF8b accessory protein from Middle East respiratory syndrome-related coronavirus (MERS-CoV) and related merbecoviruses (C lineage), and protein I (also known as accessory protein N2) from bovine enteritic coronavirus-F15 strain (BECV-F15) and related Embecoviruses (A lineage). The gene encoding ORF8b is an internal ORF that is overlapped by the N (nucleocapsid) protein gene (ORF8a), and the gene encoding protein I is included in the N gene as an alternative ORF. ORF8b and protein I appear to have no homologous proteins in Sarbecovirus (lineage B), which includes Severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) and SARS-CoV-2 (2019 novel coronavirus, 2019-nCoV). There are five essential genes in CoVs that result in the following gene products: Spike (S) protein, Membrane (M) glycoprotein, Nucleocapsid (N), Envelope (E) protein, and replicase/protease polyproteins (ORF1ab); all are required to produce a structurally complete viral particle. In addition, CoV genomes also contain ORFs coding for accessory proteins that are specific for certain CoV lineages or for a particular CoV. In general, CoV accessory proteins are considered dispensable for viral replication; however, several accessory proteins have been shown to exhibit functions in virus-host interactions during CoV infection. MERS-CoV ORF8b and BECV-F15 protein I are not essential for viral replication.


The actual alignment was detected with superfamily member cd21662:

Pssm-ID: 424098  Cd Length: 115  Bit Score: 149.96  E-value: 8.50e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285  86 LLKQKDIGIDTAGVLLKQLMVNKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRQGILLLKKLSL 165
Cdd:cd21662    1 LLKQRDIGIDTTDVLLKHLMASRSSCCPDGIFTILEQGPMLEPSMATALKESSGLLITRLTLIPLLTLLKGTQVAMRLFL 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 545299285 166 LGFRLVRFCLKAIMLKAQEGLLLIVDQVHVlNHVDP 201
Cdd:cd21662   81 LGLRLVRYCLKAIMLKAQEGLHLLVDLVRG-HNPVG 115
 
Name Accession Description Interval E-value
embe-CoV_Protein-I_like cd21662
BECV protein I and related Embecovirus proteins; This subfamily includes protein I (also known ...
 86-201 8.50e-47

BECV protein I and related Embecovirus proteins; This subfamily includes protein I (also known as accessory protein N2) from bovine enteritic coronavirus-F15 strain (BECV-F15) and related Embecoviruses (A lineage) including murine hepatitis virus. The gene encoding protein I is included in the N gene as an alternative ORF. Protein I appears to have no homologous proteins in Sarbecovirus lineage B, which includes Severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) and SARS-CoV-2 (2019 novel coronavirus, 2019-nCoV). There are five essential genes in CoVs that result in the following gene products: Spike (S) protein, Membrane (M) glycoprotein, Nucleocapsid (N), Envelope (E) protein, and replicase/protease polyproteins (ORF1ab); all are required to produce a structurally complete viral particle. In addition, CoV genomes also contain ORFs coding for accessory proteins that are specific for certain CoV lineages or for a particular CoV. In general, CoV accessory proteins are considered dispensable for viral replication; however, several accessory proteins have been shown to exhibit functions in virus-host interactions during CoV infection. BECV-F15 protein I is not essential for viral replication. It is related to the ORF8b accessory protein of Middle East respiratory syndrome-related coronavirus (MERS-CoV) and other related merbecoviruses (C lineage); the gene encoding ORF8b is an internal ORF that is overlapped by the N (nucleocapsid) protein gene (ORF8a).


Pssm-ID: 394943  Cd Length: 115  Bit Score: 149.96  E-value: 8.50e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285  86 LLKQKDIGIDTAGVLLKQLMVNKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRQGILLLKKLSL 165
Cdd:cd21662    1 LLKQRDIGIDTTDVLLKHLMASRSSCCPDGIFTILEQGPMLEPSMATALKESSGLLITRLTLIPLLTLLKGTQVAMRLFL 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 545299285 166 LGFRLVRFCLKAIMLKAQEGLLLIVDQVHVlNHVDP 201
Cdd:cd21662   81 LGLRLVRYCLKAIMLKAQEGLHLLVDLVRG-HNPVG 115
Corona_I pfam03187
Corona nucleocapsid I protein;
13-203 7.35e-22

Corona nucleocapsid I protein;


Pssm-ID: 281216  Cd Length: 207  Bit Score: 88.61  E-value: 7.35e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285   13 ESSRKLLGLTNLSEITKPLIEAEKPNLNSLCLLNHKE-ILSHIIPGSPGSLNFKKVETLNFQMVKEFPLLSESPLLKQKD 91
Cdd:pfam03187   2 ESSRRPLGLTKPSVDQIIKIEAEGISQSRLQLLNPTPgVWFPITPGFLALPSSKRERSFSLQKDKECLLPMESPLQSKRD 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285   92 IGIDTAGVLLKQLMVNKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRQGILLLKKLSLLGFRLV 171
Cdd:pfam03187  82 IGIDTTAVLLKHLMGSRSNYCPDGIFTILAQGPMLEPVMETALKVSSGLQTAKRTPIPALILSKGTQAVMRLFLLGLRPA 161

                         170       180       190
                  ....*....|....*....|....*....|..
gi 545299285  172 RFCLKAIMLKAQEGLLLIVDQVHVLNHVDPIL 203
Cdd:pfam03187 162 RYCLRAFMLKALEGLHLLADLVRGHNPVGQII 193
 
Name Accession Description Interval E-value
embe-CoV_Protein-I_like cd21662
BECV protein I and related Embecovirus proteins; This subfamily includes protein I (also known ...
 86-201 8.50e-47

BECV protein I and related Embecovirus proteins; This subfamily includes protein I (also known as accessory protein N2) from bovine enteritic coronavirus-F15 strain (BECV-F15) and related Embecoviruses (A lineage) including murine hepatitis virus. The gene encoding protein I is included in the N gene as an alternative ORF. Protein I appears to have no homologous proteins in Sarbecovirus lineage B, which includes Severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) and SARS-CoV-2 (2019 novel coronavirus, 2019-nCoV). There are five essential genes in CoVs that result in the following gene products: Spike (S) protein, Membrane (M) glycoprotein, Nucleocapsid (N), Envelope (E) protein, and replicase/protease polyproteins (ORF1ab); all are required to produce a structurally complete viral particle. In addition, CoV genomes also contain ORFs coding for accessory proteins that are specific for certain CoV lineages or for a particular CoV. In general, CoV accessory proteins are considered dispensable for viral replication; however, several accessory proteins have been shown to exhibit functions in virus-host interactions during CoV infection. BECV-F15 protein I is not essential for viral replication. It is related to the ORF8b accessory protein of Middle East respiratory syndrome-related coronavirus (MERS-CoV) and other related merbecoviruses (C lineage); the gene encoding ORF8b is an internal ORF that is overlapped by the N (nucleocapsid) protein gene (ORF8a).


Pssm-ID: 394943  Cd Length: 115  Bit Score: 149.96  E-value: 8.50e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285  86 LLKQKDIGIDTAGVLLKQLMVNKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRQGILLLKKLSL 165
Cdd:cd21662    1 LLKQRDIGIDTTDVLLKHLMASRSSCCPDGIFTILEQGPMLEPSMATALKESSGLLITRLTLIPLLTLLKGTQVAMRLFL 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 545299285 166 LGFRLVRFCLKAIMLKAQEGLLLIVDQVHVlNHVDP 201
Cdd:cd21662   81 LGLRLVRYCLKAIMLKAQEGLHLLVDLVRG-HNPVG 115
Corona_I pfam03187
Corona nucleocapsid I protein;
13-203 7.35e-22

Corona nucleocapsid I protein;


Pssm-ID: 281216  Cd Length: 207  Bit Score: 88.61  E-value: 7.35e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285   13 ESSRKLLGLTNLSEITKPLIEAEKPNLNSLCLLNHKE-ILSHIIPGSPGSLNFKKVETLNFQMVKEFPLLSESPLLKQKD 91
Cdd:pfam03187   2 ESSRRPLGLTKPSVDQIIKIEAEGISQSRLQLLNPTPgVWFPITPGFLALPSSKRERSFSLQKDKECLLPMESPLQSKRD 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285   92 IGIDTAGVLLKQLMVNKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRQGILLLKKLSLLGFRLV 171
Cdd:pfam03187  82 IGIDTTAVLLKHLMGSRSNYCPDGIFTILAQGPMLEPVMETALKVSSGLQTAKRTPIPALILSKGTQAVMRLFLLGLRPA 161

                         170       180       190
                  ....*....|....*....|....*....|..
gi 545299285  172 RFCLKAIMLKAQEGLLLIVDQVHVLNHVDPIL 203
Cdd:pfam03187 162 RYCLRAFMLKALEGLHLLADLVRGHNPVGQII 193
embe-merbe_CoV_ORF8b_protein-I-like cd21654
MERS-CoV ORF8b, BECV protein I, and related Embecovirus and Merbecovirus proteins; This family ...
 86-191 2.84e-07

MERS-CoV ORF8b, BECV protein I, and related Embecovirus and Merbecovirus proteins; This family includes the ORF8b accessory protein from Middle East respiratory syndrome-related coronavirus (MERS-CoV) and related merbecoviruses (C lineage), and protein I (also known as accessory protein N2) from bovine enteritic coronavirus-F15 strain (BECV-F15) and related Embecoviruses (A lineage). The gene encoding ORF8b is an internal ORF that is overlapped by the N (nucleocapsid) protein gene (ORF8a), and the gene encoding protein I is included in the N gene as an alternative ORF. ORF8b and protein I appear to have no homologous proteins in Sarbecovirus (lineage B), which includes Severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) and SARS-CoV-2 (2019 novel coronavirus, 2019-nCoV). There are five essential genes in CoVs that result in the following gene products: Spike (S) protein, Membrane (M) glycoprotein, Nucleocapsid (N), Envelope (E) protein, and replicase/protease polyproteins (ORF1ab); all are required to produce a structurally complete viral particle. In addition, CoV genomes also contain ORFs coding for accessory proteins that are specific for certain CoV lineages or for a particular CoV. In general, CoV accessory proteins are considered dispensable for viral replication; however, several accessory proteins have been shown to exhibit functions in virus-host interactions during CoV infection. MERS-CoV ORF8b and BECV-F15 protein I are not essential for viral replication.


Pssm-ID: 394941  Cd Length: 104  Bit Score: 47.25  E-value: 2.84e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 545299285  86 LLKQKDIGIDTAGVLLKQLMvnKSSCYRDGISTISVPAHMPMHPMVNPSKGSSGLLITKLTLLLPPMFRqGILLLKKLSL 165
Cdd:cd21654    1 LRKMLGIGGDRTEKLIKHME--RSSWLPGGISTTLEQDPKLASSSALISMESSGSMKNRPRLLLPLLGR-GTLTMMQLLL 77

                         90       100
                 ....*....|....*....|....*.
gi 545299285 166 LGFRLVRFCLKAIMLKAQEGLLLIVD 191
Cdd:cd21654   78 LGSRPVLSFLKTSTLKALEALVNHLQ 103
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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