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Conserved domains on  [gi|332687899|dbj|BAK22783|]
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MHC class IIB antigen, partial [Setophaga adelaidae]

Protein Classification

class II histocompatibility antigen beta chain family protein( domain architecture ID 10658565)

class II histocompatibility antigen beta chain family protein similar to the N-terminal domain of HLA class II histocompatibility antigen beta chain, which forms a heterodimer with the alpha chain to form the MHC class II molecule, which plays a critical role in immune recognition

Gene Ontology:  GO:0019882|GO:0006955|GO:0042613|GO:0016020
PubMed:  15120183|7612235

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MHC_II_beta smart00921
Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on ...
 1-63 2.18e-24

Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on the surface of antigen-presenting cells (APC), including macrophages, dendritic cells and B cells. MHC II proteins present peptide antigens that originate extracellularly from foreign bodies such as bacteria. Proteins from the pathogen are degraded into peptide fragments within the APC, which sequesters these fragments into the endosome so they can bind to MHC class II proteins, before being transported to the cell surface. MHC class II receptors display antigens for recognition by helper T cells (stimulate development of B cell clones) and inflammatory T cells (cause the release of lymphokines that attract other cells to site of infection).


:

Pssm-ID: 197989  Cd Length: 72  Bit Score: 85.73  E-value: 2.18e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332687899    1 TEKVRFVERYIYNRQTWLMFDSDVGHFVGFTPFGEFNAKRANSNPELMEYKRAAVDTYCRHNY 63
Cdd:smart00921  9 TEDVRYVVRYIYNKEELVRFDSDVGKFVAFTELGRPAAEYWNSQKDLLERLRAEVDTVCRHNY 71
 
Name Accession Description Interval E-value
MHC_II_beta smart00921
Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on ...
 1-63 2.18e-24

Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on the surface of antigen-presenting cells (APC), including macrophages, dendritic cells and B cells. MHC II proteins present peptide antigens that originate extracellularly from foreign bodies such as bacteria. Proteins from the pathogen are degraded into peptide fragments within the APC, which sequesters these fragments into the endosome so they can bind to MHC class II proteins, before being transported to the cell surface. MHC class II receptors display antigens for recognition by helper T cells (stimulate development of B cell clones) and inflammatory T cells (cause the release of lymphokines that attract other cells to site of infection).


Pssm-ID: 197989  Cd Length: 72  Bit Score: 85.73  E-value: 2.18e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332687899    1 TEKVRFVERYIYNRQTWLMFDSDVGHFVGFTPFGEFNAKRANSNPELMEYKRAAVDTYCRHNY 63
Cdd:smart00921  9 TEDVRYVVRYIYNKEELVRFDSDVGKFVAFTELGRPAAEYWNSQKDLLERLRAEVDTVCRHNY 71
MHC_II_beta pfam00969
Class II histocompatibility antigen, beta domain;
1-63 3.66e-23

Class II histocompatibility antigen, beta domain;


Pssm-ID: 425967  Cd Length: 75  Bit Score: 82.73  E-value: 3.66e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332687899   1 TEKVRFVERYIYNRQTWLMFDSDVGHFVGFTPFGEFNAKRANSNPELMEYKRAAVDTYCRHNY 63
Cdd:pfam00969  9 TERVRFLYRYIYNKEEYTRFDSDVGEFVAVTELGRPDAEYWNSQKDLLEQLRAGVDTVCRHNY 71
 
Name Accession Description Interval E-value
MHC_II_beta smart00921
Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on ...
 1-63 2.18e-24

Class II histocompatibility antigen, beta domain; Class II MHC glycoproteins are expressed on the surface of antigen-presenting cells (APC), including macrophages, dendritic cells and B cells. MHC II proteins present peptide antigens that originate extracellularly from foreign bodies such as bacteria. Proteins from the pathogen are degraded into peptide fragments within the APC, which sequesters these fragments into the endosome so they can bind to MHC class II proteins, before being transported to the cell surface. MHC class II receptors display antigens for recognition by helper T cells (stimulate development of B cell clones) and inflammatory T cells (cause the release of lymphokines that attract other cells to site of infection).


Pssm-ID: 197989  Cd Length: 72  Bit Score: 85.73  E-value: 2.18e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332687899    1 TEKVRFVERYIYNRQTWLMFDSDVGHFVGFTPFGEFNAKRANSNPELMEYKRAAVDTYCRHNY 63
Cdd:smart00921  9 TEDVRYVVRYIYNKEELVRFDSDVGKFVAFTELGRPAAEYWNSQKDLLERLRAEVDTVCRHNY 71
MHC_II_beta pfam00969
Class II histocompatibility antigen, beta domain;
1-63 3.66e-23

Class II histocompatibility antigen, beta domain;


Pssm-ID: 425967  Cd Length: 75  Bit Score: 82.73  E-value: 3.66e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332687899   1 TEKVRFVERYIYNRQTWLMFDSDVGHFVGFTPFGEFNAKRANSNPELMEYKRAAVDTYCRHNY 63
Cdd:pfam00969  9 TERVRFLYRYIYNKEEYTRFDSDVGEFVAVTELGRPDAEYWNSQKDLLEQLRAGVDTVCRHNY 71
 
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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