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Conserved domains on  [gi|269850174|gb|ACZ49958|]
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recombinase activating protein 2, partial [Phoca groenlandica]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RAG2 super family cl28748
Recombination activating protein 2; V-D-J recombination is the combinatorial process by which ...
 1-148 3.75e-111

Recombination activating protein 2; V-D-J recombination is the combinatorial process by which the huge range of immunoglobulin and T cell binding specificity is generated from a limited amount of genetic material. This process is synergistically activated by RAG1 and RAG2 in developing lymphocytes. Defects in RAG2 in humans are a cause of severe combined immunodeficiency B cell negative and Omenn syndrome.


The actual alignment was detected with superfamily member pfam03089:

Pssm-ID: 427128  Cd Length: 339  Bit Score: 318.60  E-value: 3.75e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269850174    1 KIYVMS*AGKNSKKVTF*CTEKDLVGDVPEARYGHSIDVVYSRGKSIGVLFGGRSYIPSSQRTTEKWNSVADCLPHVFLV 80
Cdd:pfam03089  56 KLYIMSLDSKGNKKVTLRCTEKELVGDVPEARYGHTISVVYSRGKSACVLFGGRSYMPPGQRTTENWNSVVDCPPQVFLI 135

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269850174   81 DFEFGCSTSYILPELQDGLSFHVSIARNDTVYILGGHSLANNTRPTNLYRIKVDLPLGSPAVNCTVLP 148
Cdd:pfam03089 136 DLEFGCCTSYTLPELQDGQSFHVSLARNDTVYILGGHSLANNSRPPRLYRLKVDLPLGSPAVSCTVLP 203
 
Name Accession Description Interval E-value
RAG2 pfam03089
Recombination activating protein 2; V-D-J recombination is the combinatorial process by which ...
 1-148 3.75e-111

Recombination activating protein 2; V-D-J recombination is the combinatorial process by which the huge range of immunoglobulin and T cell binding specificity is generated from a limited amount of genetic material. This process is synergistically activated by RAG1 and RAG2 in developing lymphocytes. Defects in RAG2 in humans are a cause of severe combined immunodeficiency B cell negative and Omenn syndrome.


Pssm-ID: 427128  Cd Length: 339  Bit Score: 318.60  E-value: 3.75e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269850174    1 KIYVMS*AGKNSKKVTF*CTEKDLVGDVPEARYGHSIDVVYSRGKSIGVLFGGRSYIPSSQRTTEKWNSVADCLPHVFLV 80
Cdd:pfam03089  56 KLYIMSLDSKGNKKVTLRCTEKELVGDVPEARYGHTISVVYSRGKSACVLFGGRSYMPPGQRTTENWNSVVDCPPQVFLI 135

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269850174   81 DFEFGCSTSYILPELQDGLSFHVSIARNDTVYILGGHSLANNTRPTNLYRIKVDLPLGSPAVNCTVLP 148
Cdd:pfam03089 136 DLEFGCCTSYTLPELQDGQSFHVSLARNDTVYILGGHSLANNSRPPRLYRLKVDLPLGSPAVSCTVLP 203
 
Name Accession Description Interval E-value
RAG2 pfam03089
Recombination activating protein 2; V-D-J recombination is the combinatorial process by which ...
 1-148 3.75e-111

Recombination activating protein 2; V-D-J recombination is the combinatorial process by which the huge range of immunoglobulin and T cell binding specificity is generated from a limited amount of genetic material. This process is synergistically activated by RAG1 and RAG2 in developing lymphocytes. Defects in RAG2 in humans are a cause of severe combined immunodeficiency B cell negative and Omenn syndrome.


Pssm-ID: 427128  Cd Length: 339  Bit Score: 318.60  E-value: 3.75e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269850174    1 KIYVMS*AGKNSKKVTF*CTEKDLVGDVPEARYGHSIDVVYSRGKSIGVLFGGRSYIPSSQRTTEKWNSVADCLPHVFLV 80
Cdd:pfam03089  56 KLYIMSLDSKGNKKVTLRCTEKELVGDVPEARYGHTISVVYSRGKSACVLFGGRSYMPPGQRTTENWNSVVDCPPQVFLI 135

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269850174   81 DFEFGCSTSYILPELQDGLSFHVSIARNDTVYILGGHSLANNTRPTNLYRIKVDLPLGSPAVNCTVLP 148
Cdd:pfam03089 136 DLEFGCCTSYTLPELQDGQSFHVSLARNDTVYILGGHSLANNSRPPRLYRLKVDLPLGSPAVSCTVLP 203
 
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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