NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1049012056|ref|YP_009269416|]
View 

matrix protein [Variegated squirrel bornavirus 1]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
BDV_M super family cl24927
ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from ...
 20-122 8.88e-62

ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from negative-strand Bornaviridae viruses. Its most stable oligomeric form is a tetramer, and it lies beneath the viral envelope where it associates with the inner layer of the viral membrane. It bridges the gap between the nucleocapsid and the viral envelope thereby imparting structural integrity and individual form to the virus particle. Borna disease virus (BDV) is a neurotropic enveloped RNA virus causing a noncytolytic, persistent infection of the central nervous system in mammals. The order to which this virus belongs, Mononegavirales, also contains the Ebola, mumps, rabies and measles viruses, amongst other highly infectious agents.


The actual alignment was detected with superfamily member pfam16520:

Pssm-ID: 293128  Cd Length: 103  Bit Score: 184.89  E-value: 8.88e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1049012056  20 PTLMLEIDFVGGSSRNQFLNIPFLSVKEPLQLPREKRLTDYLTIDVEPAGHSLVNIYLQIDDFLALTLNSISVYKEPVKK 99
Cdd:pfam16520   1 PTLMLEIDFVGGTSRNQFLNIPFLSVKEPLQLPREKKLTDYFTIDVEPAGHSLVNIYFQIDDFLLLTLNSLSVYKDPIRK 80

                          90       100
                  ....*....|....*....|...
gi 1049012056 100 FMYIRLNEEQSKHAINAAFNVFS 122
Cdd:pfam16520  81 YMFLRLNKDQSKHAINAAFNVFS 103
 
Name Accession Description Interval E-value
BDV_M pfam16520
ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from ...
 20-122 8.88e-62

ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from negative-strand Bornaviridae viruses. Its most stable oligomeric form is a tetramer, and it lies beneath the viral envelope where it associates with the inner layer of the viral membrane. It bridges the gap between the nucleocapsid and the viral envelope thereby imparting structural integrity and individual form to the virus particle. Borna disease virus (BDV) is a neurotropic enveloped RNA virus causing a noncytolytic, persistent infection of the central nervous system in mammals. The order to which this virus belongs, Mononegavirales, also contains the Ebola, mumps, rabies and measles viruses, amongst other highly infectious agents.


Pssm-ID: 293128  Cd Length: 103  Bit Score: 184.89  E-value: 8.88e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1049012056  20 PTLMLEIDFVGGSSRNQFLNIPFLSVKEPLQLPREKRLTDYLTIDVEPAGHSLVNIYLQIDDFLALTLNSISVYKEPVKK 99
Cdd:pfam16520   1 PTLMLEIDFVGGTSRNQFLNIPFLSVKEPLQLPREKKLTDYFTIDVEPAGHSLVNIYFQIDDFLLLTLNSLSVYKDPIRK 80

                          90       100
                  ....*....|....*....|...
gi 1049012056 100 FMYIRLNEEQSKHAINAAFNVFS 122
Cdd:pfam16520  81 YMFLRLNKDQSKHAINAAFNVFS 103
 
Name Accession Description Interval E-value
BDV_M pfam16520
ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from ...
 20-122 8.88e-62

ssRNA-binding matrix protein of Bornaviridae; BDV_M is a family of matrix proteins from negative-strand Bornaviridae viruses. Its most stable oligomeric form is a tetramer, and it lies beneath the viral envelope where it associates with the inner layer of the viral membrane. It bridges the gap between the nucleocapsid and the viral envelope thereby imparting structural integrity and individual form to the virus particle. Borna disease virus (BDV) is a neurotropic enveloped RNA virus causing a noncytolytic, persistent infection of the central nervous system in mammals. The order to which this virus belongs, Mononegavirales, also contains the Ebola, mumps, rabies and measles viruses, amongst other highly infectious agents.


Pssm-ID: 293128  Cd Length: 103  Bit Score: 184.89  E-value: 8.88e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1049012056  20 PTLMLEIDFVGGSSRNQFLNIPFLSVKEPLQLPREKRLTDYLTIDVEPAGHSLVNIYLQIDDFLALTLNSISVYKEPVKK 99
Cdd:pfam16520   1 PTLMLEIDFVGGTSRNQFLNIPFLSVKEPLQLPREKKLTDYFTIDVEPAGHSLVNIYFQIDDFLLLTLNSLSVYKDPIRK 80

                          90       100
                  ....*....|....*....|...
gi 1049012056 100 FMYIRLNEEQSKHAINAAFNVFS 122
Cdd:pfam16520  81 YMFLRLNKDQSKHAINAAFNVFS 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH