NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|254574701]
View 

Chain A, Non-structural protein NS1

Protein Classification

NS1 family protein( domain architecture ID 565)

NS1 family protein similar to Influenza A virus non-structural protein 1 (NS1) which is an antagonist of host immune responses and is implicated in virulence

CATH:  3.30.420.330
Gene Ontology:  GO:0030291|GO:0039524|GO:0039580
PubMed:  16715094
SCOP:  4003394

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Flu_NS1 super family cl02904
Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is ...
 2-132 7.55e-90

Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA.


The actual alignment was detected with superfamily member pfam00600:

Pssm-ID: 366187  Cd Length: 217  Bit Score: 259.95  E-value: 7.55e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254574701    2 PASRYITDMTIEELSRDWFMLMPKQKVEGPLCIRIDQAIMDKNIMLKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 81
Cdd:pfam00600  85 PASRYLTDMTLEEMSREWSMLIPKQKVAGPLCIRMDQAIMDKNIILKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 164

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 254574701   82 SFPGHTIEDVKNAIGVLIGGLERNDNTVRVSKTLQRFAWGSSNENGRPPLT 132
Cdd:pfam00600 165 SLPGHTAEDVKNAVGVLIGGLEWNDNTVRVSETLQRFAWRSSNENGRPPLT 215
 
Name Accession Description Interval E-value
Flu_NS1 pfam00600
Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is ...
 2-132 7.55e-90

Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA.


Pssm-ID: 366187  Cd Length: 217  Bit Score: 259.95  E-value: 7.55e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254574701    2 PASRYITDMTIEELSRDWFMLMPKQKVEGPLCIRIDQAIMDKNIMLKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 81
Cdd:pfam00600  85 PASRYLTDMTLEEMSREWSMLIPKQKVAGPLCIRMDQAIMDKNIILKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 164

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 254574701   82 SFPGHTIEDVKNAIGVLIGGLERNDNTVRVSKTLQRFAWGSSNENGRPPLT 132
Cdd:pfam00600 165 SLPGHTAEDVKNAVGVLIGGLEWNDNTVRVSETLQRFAWRSSNENGRPPLT 215
 
Name Accession Description Interval E-value
Flu_NS1 pfam00600
Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is ...
 2-132 7.55e-90

Influenza non-structural protein (NS1); NS1 is a homodimeric RNA-binding protein that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA.


Pssm-ID: 366187  Cd Length: 217  Bit Score: 259.95  E-value: 7.55e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 254574701    2 PASRYITDMTIEELSRDWFMLMPKQKVEGPLCIRIDQAIMDKNIMLKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 81
Cdd:pfam00600  85 PASRYLTDMTLEEMSREWSMLIPKQKVAGPLCIRMDQAIMDKNIILKANFSVIFDRLETLILLRAFTEEGAIVGEISPLP 164

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 254574701   82 SFPGHTIEDVKNAIGVLIGGLERNDNTVRVSKTLQRFAWGSSNENGRPPLT 132
Cdd:pfam00600 165 SLPGHTAEDVKNAVGVLIGGLEWNDNTVRVSETLQRFAWRSSNENGRPPLT 215
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH