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Conserved domains on  [gi|351712714|gb|EHB15633|]
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Gag polyprotein, partial [Heterocephalus glaber]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MLVIN_C pfam18697
Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain ...
 164-246 6.26e-53

Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain (CTD) which can be found in murine leukemia virus (MLV) integrase (IN) proteins. The MLV IN C-terminal domain interacts with the bromo and extraterminal (BET) proteins through the ET domain. This interaction provides a structural basis for global in vivo integration-site preferences andt disruption of this interaction through truncation mutations affects the global targeting profile of MLV. The CTD consists an SH3 fold followed by a long unstructured tail.


:

Pssm-ID: 436671  Cd Length: 83  Bit Score: 165.78  E-value: 6.26e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714  164 HRYQPGDWIFVRRHRQKDLEPRWKGPYVTVLTTPTALKVNGIASWVHCTHVRLADPHAVLEDYIPSWQVSKNRDNPLKLR 243
Cdd:pfam18697   1 HRYQPGDWVFVRRHQQKTLEPRWKGPYVVVLTTPTALKVDGIAAWVHYTHVRPADPHAVLEDFIPSWQVQKDRDNPLKLR 80


                  ...
gi 351712714  244 LCR 246
Cdd:pfam18697  81 LRR 83
Gag_p30 super family cl03444
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 24-139 2.41e-45

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


The actual alignment was detected with superfamily member pfam02093:

Pssm-ID: 426597  Cd Length: 208  Bit Score: 150.97  E-value: 2.41e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714   24 HYWPFTTSDLYNWRIQHAKFSDNPRDLINLLETVLFTHQPTWDDCQQLLQILFTTEEQERIQNEARKLVPGDNGQPTTNV 103
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAVRGNDGRPTQLP 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 351712714  104 DTINTSFPLSRPDWDFTTAEVLTELDV--QKLLSSLQS 139
Cdd:pfam02093  81 NEVDAAFPLERPDWDYTTPAGRNHLVLyrQLLLAGLQN 118
 
Name Accession Description Interval E-value
MLVIN_C pfam18697
Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain ...
 164-246 6.26e-53

Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain (CTD) which can be found in murine leukemia virus (MLV) integrase (IN) proteins. The MLV IN C-terminal domain interacts with the bromo and extraterminal (BET) proteins through the ET domain. This interaction provides a structural basis for global in vivo integration-site preferences andt disruption of this interaction through truncation mutations affects the global targeting profile of MLV. The CTD consists an SH3 fold followed by a long unstructured tail.


Pssm-ID: 436671  Cd Length: 83  Bit Score: 165.78  E-value: 6.26e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714  164 HRYQPGDWIFVRRHRQKDLEPRWKGPYVTVLTTPTALKVNGIASWVHCTHVRLADPHAVLEDYIPSWQVSKNRDNPLKLR 243
Cdd:pfam18697   1 HRYQPGDWVFVRRHQQKTLEPRWKGPYVVVLTTPTALKVDGIAAWVHYTHVRPADPHAVLEDFIPSWQVQKDRDNPLKLR 80


                  ...
gi 351712714  244 LCR 246
Cdd:pfam18697  81 LRR 83
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 24-139 2.41e-45

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 150.97  E-value: 2.41e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714   24 HYWPFTTSDLYNWRIQHAKFSDNPRDLINLLETVLFTHQPTWDDCQQLLQILFTTEEQERIQNEARKLVPGDNGQPTTNV 103
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAVRGNDGRPTQLP 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 351712714  104 DTINTSFPLSRPDWDFTTAEVLTELDV--QKLLSSLQS 139
Cdd:pfam02093  81 NEVDAAFPLERPDWDYTTPAGRNHLVLyrQLLLAGLQN 118
 
Name Accession Description Interval E-value
MLVIN_C pfam18697
Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain ...
 164-246 6.26e-53

Murine leukemia virus (MLV) integrase (IN) C-terminal domain; This is the C-terminal domain (CTD) which can be found in murine leukemia virus (MLV) integrase (IN) proteins. The MLV IN C-terminal domain interacts with the bromo and extraterminal (BET) proteins through the ET domain. This interaction provides a structural basis for global in vivo integration-site preferences andt disruption of this interaction through truncation mutations affects the global targeting profile of MLV. The CTD consists an SH3 fold followed by a long unstructured tail.


Pssm-ID: 436671  Cd Length: 83  Bit Score: 165.78  E-value: 6.26e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714  164 HRYQPGDWIFVRRHRQKDLEPRWKGPYVTVLTTPTALKVNGIASWVHCTHVRLADPHAVLEDYIPSWQVSKNRDNPLKLR 243
Cdd:pfam18697   1 HRYQPGDWVFVRRHQQKTLEPRWKGPYVVVLTTPTALKVDGIAAWVHYTHVRPADPHAVLEDFIPSWQVQKDRDNPLKLR 80


                  ...
gi 351712714  244 LCR 246
Cdd:pfam18697  81 LRR 83
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 24-139 2.41e-45

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 150.97  E-value: 2.41e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 351712714   24 HYWPFTTSDLYNWRIQHAKFSDNPRDLINLLETVLFTHQPTWDDCQQLLQILFTTEEQERIQNEARKLVPGDNGQPTTNV 103
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAVRGNDGRPTQLP 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 351712714  104 DTINTSFPLSRPDWDFTTAEVLTELDV--QKLLSSLQS 139
Cdd:pfam02093  81 NEVDAAFPLERPDWDYTTPAGRNHLVLyrQLLLAGLQN 118
 
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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