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Conserved domains on  [gi|6320126|ref|NP_010206|]
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Vam6p [Saccharomyces cerevisiae S288C]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Vps39_1 pfam10366
Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein ...
 603-715 3.56e-42

Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. The precise function of this domain has not been characterized.


:

Pssm-ID: 371008  Cd Length: 108  Bit Score: 149.31  E-value: 3.56e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     603 IDTVLFKCYLYYNPPMVGPFIRVENHCDSHVIVTELKIRHMFKDLIDFYYKRGNHEEALKFLTDLVDElendnTDQKQRQ 682
Cdd:pfam10366    1 IDTTLLKCYLYTNPSLVGPLLRIENACDLEDVEEWLKKHKKYSELIDLYYGKGLHREALQLLTELADE-----TTGDETD 75

                           90       100       110
                   ....*....|....*....|....*....|...
gi 6320126     683 KIDHGVKILVIYYLKKLSNPQLDVIFTYTDWLL 715
Cdd:pfam10366   76 STLKGPKETIIQYLQKLGPSDLDLILEYSDWVL 108
Vps39_2 super family cl11034
Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein ...
 905-1016 3.47e-09

Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. This domain is involved in localization and in mediating the interactions of Vps39 with Vps11.


The actual alignment was detected with superfamily member pfam10367:

Pssm-ID: 402126  Cd Length: 109  Bit Score: 55.34  E-value: 3.47e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     905 LNFLQDHGSKLNSAEIYKNLPQDISLYDIGRVVSQLLKKHTSKMDETRLEKALLQVELVATTYKLNERMSSYGVLSDSHK 984
Cdd:pfam10367    1 LDLLNKHAERIDPAQVLQLLPDEIPLQDLSSFLERALRNSSEAKREAQVVKNLSKAENLQVEEELLKLRSRKVRVTEESV 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 6320126     985 CPICKKVISNfgtdsiSWFTREGRNIITHYNC 1016
Cdd:pfam10367   81 CAVCHKRLGE------SVFVVYPNGVVVHYGC 106
Clathrin super family cl47574
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 756-887 7.09e-03

Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are composed of multiple alpha helical repeats. They occur in the arm region of the Clathrin heavy chain.


The actual alignment was detected with superfamily member pfam00637:

Pssm-ID: 459884 [Multi-domain]  Cd Length: 142  Bit Score: 38.01  E-value: 7.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     756 LAIQYLEFAISTFRLEGNKLHTVLIKLYLENLDIPstriKLKSLLETTSVYEPRTILKLLNDAiesgsdqlptNQLNFVK 835
Cdd:pfam00637   25 ELISYLESALKEDSRENPALQTALIELYAKYDDPE----ELEEFLKKNNNYDLEKVAKLCEKA----------DLYEEAV 90

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 6320126     836 YLkifpLSKLENHKEAVHiLLDEIDDYKAATSYCndVYQSDSTKGEELLLYL 887
Cdd:pfam00637   91 IL----YKKIGNWKEAIS-LLKKLGDYKDAIEYA--VKSSNPELWEELLEAL 135
 
Name Accession Description Interval E-value
Vps39_1 pfam10366
Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein ...
 603-715 3.56e-42

Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. The precise function of this domain has not been characterized.


Pssm-ID: 371008  Cd Length: 108  Bit Score: 149.31  E-value: 3.56e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     603 IDTVLFKCYLYYNPPMVGPFIRVENHCDSHVIVTELKIRHMFKDLIDFYYKRGNHEEALKFLTDLVDElendnTDQKQRQ 682
Cdd:pfam10366    1 IDTTLLKCYLYTNPSLVGPLLRIENACDLEDVEEWLKKHKKYSELIDLYYGKGLHREALQLLTELADE-----TTGDETD 75

                           90       100       110
                   ....*....|....*....|....*....|...
gi 6320126     683 KIDHGVKILVIYYLKKLSNPQLDVIFTYTDWLL 715
Cdd:pfam10366   76 STLKGPKETIIQYLQKLGPSDLDLILEYSDWVL 108
Vps39_2 pfam10367
Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein ...
 905-1016 3.47e-09

Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. This domain is involved in localization and in mediating the interactions of Vps39 with Vps11.


Pssm-ID: 402126  Cd Length: 109  Bit Score: 55.34  E-value: 3.47e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     905 LNFLQDHGSKLNSAEIYKNLPQDISLYDIGRVVSQLLKKHTSKMDETRLEKALLQVELVATTYKLNERMSSYGVLSDSHK 984
Cdd:pfam10367    1 LDLLNKHAERIDPAQVLQLLPDEIPLQDLSSFLERALRNSSEAKREAQVVKNLSKAENLQVEEELLKLRSRKVRVTEESV 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 6320126     985 CPICKKVISNfgtdsiSWFTREGRNIITHYNC 1016
Cdd:pfam10367   81 CAVCHKRLGE------SVFVVYPNGVVVHYGC 106
Clathrin pfam00637
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 756-887 7.09e-03

Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are composed of multiple alpha helical repeats. They occur in the arm region of the Clathrin heavy chain.


Pssm-ID: 459884 [Multi-domain]  Cd Length: 142  Bit Score: 38.01  E-value: 7.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     756 LAIQYLEFAISTFRLEGNKLHTVLIKLYLENLDIPstriKLKSLLETTSVYEPRTILKLLNDAiesgsdqlptNQLNFVK 835
Cdd:pfam00637   25 ELISYLESALKEDSRENPALQTALIELYAKYDDPE----ELEEFLKKNNNYDLEKVAKLCEKA----------DLYEEAV 90

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 6320126     836 YLkifpLSKLENHKEAVHiLLDEIDDYKAATSYCndVYQSDSTKGEELLLYL 887
Cdd:pfam00637   91 IL----YKKIGNWKEAIS-LLKKLGDYKDAIEYA--VKSSNPELWEELLEAL 135
 
Name Accession Description Interval E-value
Vps39_1 pfam10366
Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein ...
 603-715 3.56e-42

Vacuolar sorting protein 39 domain 1; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. The precise function of this domain has not been characterized.


Pssm-ID: 371008  Cd Length: 108  Bit Score: 149.31  E-value: 3.56e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     603 IDTVLFKCYLYYNPPMVGPFIRVENHCDSHVIVTELKIRHMFKDLIDFYYKRGNHEEALKFLTDLVDElendnTDQKQRQ 682
Cdd:pfam10366    1 IDTTLLKCYLYTNPSLVGPLLRIENACDLEDVEEWLKKHKKYSELIDLYYGKGLHREALQLLTELADE-----TTGDETD 75

                           90       100       110
                   ....*....|....*....|....*....|...
gi 6320126     683 KIDHGVKILVIYYLKKLSNPQLDVIFTYTDWLL 715
Cdd:pfam10366   76 STLKGPKETIIQYLQKLGPSDLDLILEYSDWVL 108
Vps39_2 pfam10367
Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein ...
 905-1016 3.47e-09

Vacuolar sorting protein 39 domain 2; This domain is found on the vacuolar sorting protein Vps39 which is a component of the C-Vps complex. Vps39 is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole. In Saccharomyces cerevisiae, Vps39 has been shown to stimulate nucleotide exchange. This domain is involved in localization and in mediating the interactions of Vps39 with Vps11.


Pssm-ID: 402126  Cd Length: 109  Bit Score: 55.34  E-value: 3.47e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     905 LNFLQDHGSKLNSAEIYKNLPQDISLYDIGRVVSQLLKKHTSKMDETRLEKALLQVELVATTYKLNERMSSYGVLSDSHK 984
Cdd:pfam10367    1 LDLLNKHAERIDPAQVLQLLPDEIPLQDLSSFLERALRNSSEAKREAQVVKNLSKAENLQVEEELLKLRSRKVRVTEESV 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 6320126     985 CPICKKVISNfgtdsiSWFTREGRNIITHYNC 1016
Cdd:pfam10367   81 CAVCHKRLGE------SVFVVYPNGVVVHYGC 106
Clathrin pfam00637
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 756-887 7.09e-03

Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are composed of multiple alpha helical repeats. They occur in the arm region of the Clathrin heavy chain.


Pssm-ID: 459884 [Multi-domain]  Cd Length: 142  Bit Score: 38.01  E-value: 7.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6320126     756 LAIQYLEFAISTFRLEGNKLHTVLIKLYLENLDIPstriKLKSLLETTSVYEPRTILKLLNDAiesgsdqlptNQLNFVK 835
Cdd:pfam00637   25 ELISYLESALKEDSRENPALQTALIELYAKYDDPE----ELEEFLKKNNNYDLEKVAKLCEKA----------DLYEEAV 90

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 6320126     836 YLkifpLSKLENHKEAVHiLLDEIDDYKAATSYCndVYQSDSTKGEELLLYL 887
Cdd:pfam00637   91 IL----YKKIGNWKEAIS-LLKKLGDYKDAIEYA--VKSSNPELWEELLEAL 135
 
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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