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Conserved domains on  [gi|1796318602|ref|YP_009724394|]
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ORF6 protein [Severe acute respiratory syndrome coronavirus 2]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bCoV_NS6 super family cl13556
Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as ...
 1-61 2.98e-19

Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as non-structural protein 6, accessory protein 6, or X3 protein), which is highly conserved among SARS-related coronaviruses. (This is distinct from NSP6 which is encoded on the replicase polyprotein). Proteins in this family are typically between 42 to 63 amino acids in length. NS6 is located in the endoplasmic reticulum. It has been reported that NS6 can increase the cellular gene synthesis and it can also induce apoptosis through Jun N-terminal kinase and Caspase-3 mediated stress. This protein can modulate host antiviral responses by inhibiting synthesis and signalling of IFN-beta, via NS6 interaction with host N-Myc (and STAT) interactor (Nmi) protein and suppressing the translocation of signal transducer and activator of transcription 1 (STAT1).


The actual alignment was detected with superfamily member pfam12133:

Pssm-ID: 463468  Cd Length: 62  Bit Score: 72.75  E-value: 2.98e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1796318602  1 MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLTENKYSQLDEEQPMEID 61
Cdd:pfam12133  1 MFHLVDFQVTIAEILIIIMRTFRIAIWNLDMIISSIVRQLFKPLTKKKYSELDDEEPMEID 61
 
Name Accession Description Interval E-value
bCoV_NS6 pfam12133
Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as ...
 1-61 2.98e-19

Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as non-structural protein 6, accessory protein 6, or X3 protein), which is highly conserved among SARS-related coronaviruses. (This is distinct from NSP6 which is encoded on the replicase polyprotein). Proteins in this family are typically between 42 to 63 amino acids in length. NS6 is located in the endoplasmic reticulum. It has been reported that NS6 can increase the cellular gene synthesis and it can also induce apoptosis through Jun N-terminal kinase and Caspase-3 mediated stress. This protein can modulate host antiviral responses by inhibiting synthesis and signalling of IFN-beta, via NS6 interaction with host N-Myc (and STAT) interactor (Nmi) protein and suppressing the translocation of signal transducer and activator of transcription 1 (STAT1).


Pssm-ID: 463468  Cd Length: 62  Bit Score: 72.75  E-value: 2.98e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1796318602  1 MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLTENKYSQLDEEQPMEID 61
Cdd:pfam12133  1 MFHLVDFQVTIAEILIIIMRTFRIAIWNLDMIISSIVRQLFKPLTKKKYSELDDEEPMEID 61
 
Name Accession Description Interval E-value
bCoV_NS6 pfam12133
Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as ...
 1-61 2.98e-19

Betacoronavirus NS6 protein; This entry represents non-structural protein NS6 (also known as non-structural protein 6, accessory protein 6, or X3 protein), which is highly conserved among SARS-related coronaviruses. (This is distinct from NSP6 which is encoded on the replicase polyprotein). Proteins in this family are typically between 42 to 63 amino acids in length. NS6 is located in the endoplasmic reticulum. It has been reported that NS6 can increase the cellular gene synthesis and it can also induce apoptosis through Jun N-terminal kinase and Caspase-3 mediated stress. This protein can modulate host antiviral responses by inhibiting synthesis and signalling of IFN-beta, via NS6 interaction with host N-Myc (and STAT) interactor (Nmi) protein and suppressing the translocation of signal transducer and activator of transcription 1 (STAT1).


Pssm-ID: 463468  Cd Length: 62  Bit Score: 72.75  E-value: 2.98e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1796318602  1 MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLTENKYSQLDEEQPMEID 61
Cdd:pfam12133  1 MFHLVDFQVTIAEILIIIMRTFRIAIWNLDMIISSIVRQLFKPLTKKKYSELDDEEPMEID 61
 
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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