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Conserved domains on  [gi|469830614|emb|CCN26592|]
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gag polyprotein, p17 region, partial [HIV-1 M:C_MP116]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gag_p17 super family cl02892
gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell ...
 1-96 5.79e-41

gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell associated with the inner membrane of the mature immunodeficiency virus.


The actual alignment was detected with superfamily member pfam00540:

Pssm-ID: 249943  Cd Length: 140  Bit Score: 132.76  E-value: 5.79e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 469830614    1 VWASRELERFALNPSLLETSEGCKQIIRQLQPALKTGTEELKSLYNTVSTLYCVHAKIAVQDTKEALDKIEEEQNKC--- 77
Cdd:pfam00540  34 VWASRELERFAVNPGLLETSEGCRKILGQLQPSLQTGSEGLRSLYNTVAVLYCVHQRIDVKDTKEALEKIEEEQNKSkkk 113

                          90       100
                  ....*....|....*....|....*..
gi 469830614   78 --------QQKTQKAEAADKGQVSQNY 96
Cdd:pfam00540 114 ktavppgaQQAANTGGTGNSSGVSQNY 140
 
Name Accession Description Interval E-value
Gag_p17 pfam00540
gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell ...
 1-96 5.79e-41

gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell associated with the inner membrane of the mature immunodeficiency virus.


Pssm-ID: 249943  Cd Length: 140  Bit Score: 132.76  E-value: 5.79e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 469830614    1 VWASRELERFALNPSLLETSEGCKQIIRQLQPALKTGTEELKSLYNTVSTLYCVHAKIAVQDTKEALDKIEEEQNKC--- 77
Cdd:pfam00540  34 VWASRELERFAVNPGLLETSEGCRKILGQLQPSLQTGSEGLRSLYNTVAVLYCVHQRIDVKDTKEALEKIEEEQNKSkkk 113

                          90       100
                  ....*....|....*....|....*..
gi 469830614   78 --------QQKTQKAEAADKGQVSQNY 96
Cdd:pfam00540 114 ktavppgaQQAANTGGTGNSSGVSQNY 140
 
Name Accession Description Interval E-value
Gag_p17 pfam00540
gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell ...
 1-96 5.79e-41

gag gene protein p17 (matrix protein); The matrix protein forms an icosahedral shell associated with the inner membrane of the mature immunodeficiency virus.


Pssm-ID: 249943  Cd Length: 140  Bit Score: 132.76  E-value: 5.79e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 469830614    1 VWASRELERFALNPSLLETSEGCKQIIRQLQPALKTGTEELKSLYNTVSTLYCVHAKIAVQDTKEALDKIEEEQNKC--- 77
Cdd:pfam00540  34 VWASRELERFAVNPGLLETSEGCRKILGQLQPSLQTGSEGLRSLYNTVAVLYCVHQRIDVKDTKEALEKIEEEQNKSkkk 113

                          90       100
                  ....*....|....*....|....*..
gi 469830614   78 --------QQKTQKAEAADKGQVSQNY 96
Cdd:pfam00540 114 ktavppgaQQAANTGGTGNSSGVSQNY 140
 
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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