NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|485099487|gb|AGK81962|]
View 

nef protein [Human immunodeficiency virus 1]

Protein Classification

protein Nef( domain architecture ID 10452613)

protein Nef accelerates virulent progression of AIDS by its interaction with cellular proteins involved in signal transduction and host cell activation; it binds specifically to a subset of the Src kinase family

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
F-protein pfam00469
Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by ...
2-205 8.85e-128

Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by its interaction with cellular proteins involved in signal transduction and host cell activation. Nef has been shown to bind specifically to a subset of the Src kinase family.


:

Pssm-ID: 425700  Cd Length: 220  Bit Score: 358.63  E-value: 8.85e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487    2 GGKWSKRSVAGWPRVRERMEQAQPA------------------ADGVGAVSRDLEKHGAITSSNTAATNDACAWLEAQEE 63
Cdd:pfam00469   1 GGSWSKKRSVGWPGLRERLRRARGGpygalwdelegessqsqeGSGKGAVSPSCEKQGAITGSNTRQQNADCADLDSDEE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487   64 EEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSKKRQEILDLWVYHTQGYFPDWHNYTPGPGTRYPLTFGWCF 143
Cdd:pfam00469  81 DEVGFPVRPQVPLRPMTYKLAVDMSHFIKEKGGLEGLYYSERRHRILDLYLEKEEGIIPDWQNYTPGPGIRYPLTFGWLF 160
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 485099487  144 KLVPVEPKDVEEatEGENNCLLHPVCQHGMEDEHREVLMWKFDSHLAFRHEAREKHPEWYKD 205
Cdd:pfam00469 161 KLVPVDVEEEEE--EGENNCLLHPAQTHGMDDPHGEVLVWKFDSLLAYEYEAFELHPEEFGH 220
 
Name Accession Description Interval E-value
F-protein pfam00469
Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by ...
2-205 8.85e-128

Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by its interaction with cellular proteins involved in signal transduction and host cell activation. Nef has been shown to bind specifically to a subset of the Src kinase family.


Pssm-ID: 425700  Cd Length: 220  Bit Score: 358.63  E-value: 8.85e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487    2 GGKWSKRSVAGWPRVRERMEQAQPA------------------ADGVGAVSRDLEKHGAITSSNTAATNDACAWLEAQEE 63
Cdd:pfam00469   1 GGSWSKKRSVGWPGLRERLRRARGGpygalwdelegessqsqeGSGKGAVSPSCEKQGAITGSNTRQQNADCADLDSDEE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487   64 EEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSKKRQEILDLWVYHTQGYFPDWHNYTPGPGTRYPLTFGWCF 143
Cdd:pfam00469  81 DEVGFPVRPQVPLRPMTYKLAVDMSHFIKEKGGLEGLYYSERRHRILDLYLEKEEGIIPDWQNYTPGPGIRYPLTFGWLF 160
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 485099487  144 KLVPVEPKDVEEatEGENNCLLHPVCQHGMEDEHREVLMWKFDSHLAFRHEAREKHPEWYKD 205
Cdd:pfam00469 161 KLVPVDVEEEEE--EGENNCLLHPAQTHGMDDPHGEVLVWKFDSLLAYEYEAFELHPEEFGH 220
 
Name Accession Description Interval E-value
F-protein pfam00469
Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by ...
2-205 8.85e-128

Negative factor, (F-Protein) or Nef; Nef protein accelerates virulent progression of AIDS by its interaction with cellular proteins involved in signal transduction and host cell activation. Nef has been shown to bind specifically to a subset of the Src kinase family.


Pssm-ID: 425700  Cd Length: 220  Bit Score: 358.63  E-value: 8.85e-128
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487    2 GGKWSKRSVAGWPRVRERMEQAQPA------------------ADGVGAVSRDLEKHGAITSSNTAATNDACAWLEAQEE 63
Cdd:pfam00469   1 GGSWSKKRSVGWPGLRERLRRARGGpygalwdelegessqsqeGSGKGAVSPSCEKQGAITGSNTRQQNADCADLDSDEE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485099487   64 EEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSKKRQEILDLWVYHTQGYFPDWHNYTPGPGTRYPLTFGWCF 143
Cdd:pfam00469  81 DEVGFPVRPQVPLRPMTYKLAVDMSHFIKEKGGLEGLYYSERRHRILDLYLEKEEGIIPDWQNYTPGPGIRYPLTFGWLF 160
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 485099487  144 KLVPVEPKDVEEatEGENNCLLHPVCQHGMEDEHREVLMWKFDSHLAFRHEAREKHPEWYKD 205
Cdd:pfam00469 161 KLVPVDVEEEEE--EGENNCLLHPAQTHGMDDPHGEVLVWKFDSLLAYEYEAFELHPEEFGH 220
 
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