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Conserved domains on  [gi|1958675235|ref|XP_038947578|]
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vacuolar protein sorting-associated protein 54 isoform X2 [Rattus norvegicus]

Protein Classification

vacuolar protein sorting-associated protein 54( domain architecture ID 10546179)

vacuolar protein sorting-associated protein 54 is a component of the GARP complex that is involved in retrograde transport from early and late endosomes to the trans-Golgi network

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Vps54 pfam07928
Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 ...
 727-853 4.95e-58

Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 protein, such as the rat homolog, the human homolog, and the mouse homolog. In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments. All Vps54 homologs contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs.


:

Pssm-ID: 462318  Cd Length: 131  Bit Score: 195.05  E-value: 4.95e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958675235 727 YAVVGTVLLLIRIILEYCQCVDNIPSVTTDMLTRLTDLLKYFNSRSCQLVLGAGALQVVGLKTITTKNLALSSRCLQLIV 806
Cdd:pfam07928   3 FIVVNSALLLLKMLSDYLHLAANFPSLASDILSRLLELLKLFNSRTCQLILGAGATRTAGLKNITAKHLALASQALSFVI 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1958675235 807 HYIPVIRAHFEARLPPKQWSLLRHFDHITKDYHDHIDEISSKLVAIM 853
Cdd:pfam07928  83 ALIPYIREFFRRHLGPKQALLLSEFDKVKRDYQEHQSEIHSKLVSIM 129
 
Name Accession Description Interval E-value
Vps54 pfam07928
Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 ...
 727-853 4.95e-58

Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 protein, such as the rat homolog, the human homolog, and the mouse homolog. In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments. All Vps54 homologs contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs.


Pssm-ID: 462318  Cd Length: 131  Bit Score: 195.05  E-value: 4.95e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958675235 727 YAVVGTVLLLIRIILEYCQCVDNIPSVTTDMLTRLTDLLKYFNSRSCQLVLGAGALQVVGLKTITTKNLALSSRCLQLIV 806
Cdd:pfam07928   3 FIVVNSALLLLKMLSDYLHLAANFPSLASDILSRLLELLKLFNSRTCQLILGAGATRTAGLKNITAKHLALASQALSFVI 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1958675235 807 HYIPVIRAHFEARLPPKQWSLLRHFDHITKDYHDHIDEISSKLVAIM 853
Cdd:pfam07928  83 ALIPYIREFFRRHLGPKQALLLSEFDKVKRDYQEHQSEIHSKLVSIM 129
 
Name Accession Description Interval E-value
Vps54 pfam07928
Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 ...
 727-853 4.95e-58

Vps54-like protein; This family contains various proteins that are homologs of the yeast Vps54 protein, such as the rat homolog, the human homolog, and the mouse homolog. In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments. All Vps54 homologs contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs.


Pssm-ID: 462318  Cd Length: 131  Bit Score: 195.05  E-value: 4.95e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958675235 727 YAVVGTVLLLIRIILEYCQCVDNIPSVTTDMLTRLTDLLKYFNSRSCQLVLGAGALQVVGLKTITTKNLALSSRCLQLIV 806
Cdd:pfam07928   3 FIVVNSALLLLKMLSDYLHLAANFPSLASDILSRLLELLKLFNSRTCQLILGAGATRTAGLKNITAKHLALASQALSFVI 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1958675235 807 HYIPVIRAHFEARLPPKQWSLLRHFDHITKDYHDHIDEISSKLVAIM 853
Cdd:pfam07928  83 ALIPYIREFFRRHLGPKQALLLSEFDKVKRDYQEHQSEIHSKLVSIM 129
 
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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