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Conserved domains on  [gi|219903590|emb|CAT99392|]
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p24, partial [HIV-1 M:B_06NOVAX10]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gag_p24_C pfam19317
Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 111-184 2.13e-40

Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


:

Pssm-ID: 466038  Cd Length: 74  Bit Score: 131.45  E-value: 2.13e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 219903590  111 MYSPVSILDIRQGPKEPFRDYVDRFYKTLRAEQATQEVKNWMTETLLVQNSNPDCKTILKALGPAATLEEMMTA 184
Cdd:pfam19317   1 GYKPTSLADIRQGPKEPYQDFVARLYDALRKEMPDGKAKDVITKQLAYENANPECQDLLKPLGKTGTLSDMIRA 74
Gag_p24 super family cl02908
gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 1-103 3.83e-07

gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


The actual alignment was detected with superfamily member pfam00607:

Pssm-ID: 459864  Cd Length: 128  Bit Score: 46.89  E-value: 3.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219903590    1 PEVIPMFTALSEG--ATPQDLNTMLNTIGGHqAAMQMLKETINEEAAEWDRiHPVHAGPIapgqmrEPRGSD-IAGTT-- 75
Cdd:pfam00607  25 PYTMQLLEALASSnaLTPYDWRTLAKAVLSP-GQYLLWKAEWQELAQEQAR-RNQRAGPD------RGITLDmLTGTGqy 96

                          90       100
                  ....*....|....*....|....*....
gi 219903590   76 STLQEQIGWMTS-NPPIPvGEIYKRWIIL 103
Cdd:pfam00607  97 ATPQAQAQLPPEvLEQIK-ALALRAWKKL 124
 
Name Accession Description Interval E-value
Gag_p24_C pfam19317
Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 111-184 2.13e-40

Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


Pssm-ID: 466038  Cd Length: 74  Bit Score: 131.45  E-value: 2.13e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 219903590  111 MYSPVSILDIRQGPKEPFRDYVDRFYKTLRAEQATQEVKNWMTETLLVQNSNPDCKTILKALGPAATLEEMMTA 184
Cdd:pfam19317   1 GYKPTSLADIRQGPKEPYQDFVARLYDALRKEMPDGKAKDVITKQLAYENANPECQDLLKPLGKTGTLSDMIRA 74
Gag_p24 pfam00607
gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 1-103 3.83e-07

gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


Pssm-ID: 459864  Cd Length: 128  Bit Score: 46.89  E-value: 3.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219903590    1 PEVIPMFTALSEG--ATPQDLNTMLNTIGGHqAAMQMLKETINEEAAEWDRiHPVHAGPIapgqmrEPRGSD-IAGTT-- 75
Cdd:pfam00607  25 PYTMQLLEALASSnaLTPYDWRTLAKAVLSP-GQYLLWKAEWQELAQEQAR-RNQRAGPD------RGITLDmLTGTGqy 96

                          90       100
                  ....*....|....*....|....*....
gi 219903590   76 STLQEQIGWMTS-NPPIPvGEIYKRWIIL 103
Cdd:pfam00607  97 ATPQAQAQLPPEvLEQIK-ALALRAWKKL 124
 
Name Accession Description Interval E-value
Gag_p24_C pfam19317
Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 111-184 2.13e-40

Gag protein p24 C-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


Pssm-ID: 466038  Cd Length: 74  Bit Score: 131.45  E-value: 2.13e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 219903590  111 MYSPVSILDIRQGPKEPFRDYVDRFYKTLRAEQATQEVKNWMTETLLVQNSNPDCKTILKALGPAATLEEMMTA 184
Cdd:pfam19317   1 GYKPTSLADIRQGPKEPYQDFVARLYDALRKEMPDGKAKDVITKQLAYENANPECQDLLKPLGKTGTLSDMIRA 74
Gag_p24 pfam00607
gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA ...
 1-103 3.83e-07

gag protein p24 N-terminal domain; p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.


Pssm-ID: 459864  Cd Length: 128  Bit Score: 46.89  E-value: 3.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 219903590    1 PEVIPMFTALSEG--ATPQDLNTMLNTIGGHqAAMQMLKETINEEAAEWDRiHPVHAGPIapgqmrEPRGSD-IAGTT-- 75
Cdd:pfam00607  25 PYTMQLLEALASSnaLTPYDWRTLAKAVLSP-GQYLLWKAEWQELAQEQAR-RNQRAGPD------RGITLDmLTGTGqy 96

                          90       100
                  ....*....|....*....|....*....
gi 219903590   76 STLQEQIGWMTS-NPPIPvGEIYKRWIIL 103
Cdd:pfam00607  97 ATPQAQAQLPPEvLEQIK-ALALRAWKKL 124
 
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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