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Conserved domains on  [gi|157817523|ref|NP_001099969|]
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vacuolar protein sorting-associated protein 18 homolog [Rattus norvegicus]

Protein Classification

VPS18 family protein( domain architecture ID 12060770)

vacuolar sorting protein 18 (VPS18) family protein similar to Drosophila melanogaster vacuolar protein sorting-associated protein 18 homolog (also known as protein deep orange) that plays a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes probably as part of the class C core vacuole/endosome tethering (CORVET) complex

Gene Ontology:  GO:0008270
PubMed:  11007473

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Pep3_Vps18 pfam05131
Pep3/Vps18/deep orange family; This region is found in a number of protein identified as ...
 291-434 3.62e-51

Pep3/Vps18/deep orange family; This region is found in a number of protein identified as involved in golgi function and vacuolar sorting. The molecular function of this region is unknown. The members of this family contain a C-terminal ring finger domain.


:

Pssm-ID: 461557  Cd Length: 147  Bit Score: 176.55  E-value: 3.62e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  291 GVLYGSLDCG--RPDSLLSEEKVWEYPAGIGPGANPPLAIVLTQFHFLLLLADRVEAVCTLTGQVVLRDHFLEKFGP-LR 367
Cdd:pfam05131   1 GIYHGELNFSssLGDKVLSSAKLLPYPELPKGSQEPPLSIALTEFHILLLYGDRVVAVNRLNGEVVFEESLPLSPGEkLL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 157817523  368 HMVKDSSTGHLWAYTERAVFRYHVQREARDVWRTYLDMNRFDLAKEYCReRPDCLDTVLAREADFCF 434
Cdd:pfam05131  81 GLTADPVKNTFWLYTDQSIFEIVVTDEDRDVWKIYLEKGQFDLALQYAK-NPAQRDAVLTAQADYLF 146
RING-H2_Vps18 cd16689
RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and ...
 851-949 6.11e-16

RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and similar proteins; Vps18 is an ubiquitin ligase E3 that is highly expressed in heart. It induces the ubiquitylation and degradation of serum-inducible kinase. Vps18 associates with Vps11, Vps16, and Vps33 to form a Class C Vps core complex that is required for soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNARE)-mediated membrane fusion at the lysosome-like yeast vacuole. The core complex, together with two additional compartment-specific subunits, forms the tethering complexes HOPS (homotypic vacuole fusion and protein sorting) and CORVET (class C core vacuole/endosome transport). CORVET contains the additional Vps3 and Vps8 subunits. It operates at endosomes, controls traffic into late endosomes and interacts with the Rab5/Vps21-GTP form. HOPS contains the additional Vps39 and Vps41 subunits. It operates at the lysosomal vacuole, controls all traffic from late endosomes into the vacuole and interacts with the Rab7/Ypt7-GTP form. Vps18 deficiency inhibits dendritogenesis in Purkinje cells by blocking the lysosomal degradation of lysyl oxidase. Vps18 contains a clathrin heavy chain repeat, a coiled-coil domain, and a C3H2C3-type RING-H2 finger domain close to its C-terminus. This subfamily also includes Vps18 homologs found in insects and fungi, such as Drosophila melanogaster protein Dor (encoded by deep orange (dor) gene), and Saccharomyces cerevisiae vacuolar membrane protein Pep3p, also known as carboxypeptidase Y-deficient protein 3, or vacuolar morphogenesis protein 8. Drosophila Dor is part of a protein complex, that also includes the Sep1p homolog carnation (car), which localizes to endosomal compartments and is required not only for the biogenesis of pigment granules but also for the normal delivery of proteins to lysosomes. Pep3p is a vacuolar peripheral membrane protein that is required for vacuolar biogenesis in Saccharomyces cerevisiae. Pep3p associates with Pep5p to form a core Pep3p/Pep5p complex that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins at multiple steps in transport routes to the vacuole.


:

Pssm-ID: 438350  Cd Length: 45  Bit Score: 72.52  E-value: 6.11e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523 851 DKCSTCDFPLLNRPFYLFLCGHMFHADCLLQavrpglptykqarleelqrklgtappptkgsvkakeaeagaaavgpsre 930
Cdd:cd16689    1 EKCAACDFPLLNRPFYLFLCGHMFHYDCLEQ------------------------------------------------- 31

                         90
                 ....*....|....*....
gi 157817523 931 qlkadLDELVAAECVYCGE 949
Cdd:cd16689   32 -----IDDIIAAECVYCGE 45
Clathrin pfam00637
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 615-743 2.95e-06

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: 47.64  E-value: 2.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  615 IEMGSRLDARQLIPALVnysqggDAQQVSQAIRYMEFCVNVLGETEQAIHNYLLSLYAR-GQPASLLAYLEQAGasphrv 693
Cdd:pfam00637   2 IESTDPIDVSRVVKLFE------KAGLLEELISYLESALKEDSRENPALQTALIELYAKyDDPEELEEFLKKNN------ 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 157817523  694 HYDLKYALRLCAEHGHHRACVHVYKVLELYEEAVDL-----ALQVDVDLAKQCAD 743
Cdd:pfam00637  70 NYDLEKVAKLCEKADLYEEAVILYKKIGNWKEAISLlkklgDYKDAIEYAVKSSN 124
 
Name Accession Description Interval E-value
Pep3_Vps18 pfam05131
Pep3/Vps18/deep orange family; This region is found in a number of protein identified as ...
 291-434 3.62e-51

Pep3/Vps18/deep orange family; This region is found in a number of protein identified as involved in golgi function and vacuolar sorting. The molecular function of this region is unknown. The members of this family contain a C-terminal ring finger domain.


Pssm-ID: 461557  Cd Length: 147  Bit Score: 176.55  E-value: 3.62e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  291 GVLYGSLDCG--RPDSLLSEEKVWEYPAGIGPGANPPLAIVLTQFHFLLLLADRVEAVCTLTGQVVLRDHFLEKFGP-LR 367
Cdd:pfam05131   1 GIYHGELNFSssLGDKVLSSAKLLPYPELPKGSQEPPLSIALTEFHILLLYGDRVVAVNRLNGEVVFEESLPLSPGEkLL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 157817523  368 HMVKDSSTGHLWAYTERAVFRYHVQREARDVWRTYLDMNRFDLAKEYCReRPDCLDTVLAREADFCF 434
Cdd:pfam05131  81 GLTADPVKNTFWLYTDQSIFEIVVTDEDRDVWKIYLEKGQFDLALQYAK-NPAQRDAVLTAQADYLF 146
RING-H2_Vps18 cd16689
RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and ...
 851-949 6.11e-16

RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and similar proteins; Vps18 is an ubiquitin ligase E3 that is highly expressed in heart. It induces the ubiquitylation and degradation of serum-inducible kinase. Vps18 associates with Vps11, Vps16, and Vps33 to form a Class C Vps core complex that is required for soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNARE)-mediated membrane fusion at the lysosome-like yeast vacuole. The core complex, together with two additional compartment-specific subunits, forms the tethering complexes HOPS (homotypic vacuole fusion and protein sorting) and CORVET (class C core vacuole/endosome transport). CORVET contains the additional Vps3 and Vps8 subunits. It operates at endosomes, controls traffic into late endosomes and interacts with the Rab5/Vps21-GTP form. HOPS contains the additional Vps39 and Vps41 subunits. It operates at the lysosomal vacuole, controls all traffic from late endosomes into the vacuole and interacts with the Rab7/Ypt7-GTP form. Vps18 deficiency inhibits dendritogenesis in Purkinje cells by blocking the lysosomal degradation of lysyl oxidase. Vps18 contains a clathrin heavy chain repeat, a coiled-coil domain, and a C3H2C3-type RING-H2 finger domain close to its C-terminus. This subfamily also includes Vps18 homologs found in insects and fungi, such as Drosophila melanogaster protein Dor (encoded by deep orange (dor) gene), and Saccharomyces cerevisiae vacuolar membrane protein Pep3p, also known as carboxypeptidase Y-deficient protein 3, or vacuolar morphogenesis protein 8. Drosophila Dor is part of a protein complex, that also includes the Sep1p homolog carnation (car), which localizes to endosomal compartments and is required not only for the biogenesis of pigment granules but also for the normal delivery of proteins to lysosomes. Pep3p is a vacuolar peripheral membrane protein that is required for vacuolar biogenesis in Saccharomyces cerevisiae. Pep3p associates with Pep5p to form a core Pep3p/Pep5p complex that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins at multiple steps in transport routes to the vacuole.


Pssm-ID: 438350  Cd Length: 45  Bit Score: 72.52  E-value: 6.11e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523 851 DKCSTCDFPLLNRPFYLFLCGHMFHADCLLQavrpglptykqarleelqrklgtappptkgsvkakeaeagaaavgpsre 930
Cdd:cd16689    1 EKCAACDFPLLNRPFYLFLCGHMFHYDCLEQ------------------------------------------------- 31

                         90
                 ....*....|....*....
gi 157817523 931 qlkadLDELVAAECVYCGE 949
Cdd:cd16689   32 -----IDDIIAAECVYCGE 45
Clathrin pfam00637
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 615-743 2.95e-06

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: 47.64  E-value: 2.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  615 IEMGSRLDARQLIPALVnysqggDAQQVSQAIRYMEFCVNVLGETEQAIHNYLLSLYAR-GQPASLLAYLEQAGasphrv 693
Cdd:pfam00637   2 IESTDPIDVSRVVKLFE------KAGLLEELISYLESALKEDSRENPALQTALIELYAKyDDPEELEEFLKKNN------ 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 157817523  694 HYDLKYALRLCAEHGHHRACVHVYKVLELYEEAVDL-----ALQVDVDLAKQCAD 743
Cdd:pfam00637  70 NYDLEKVAKLCEKADLYEEAVILYKKIGNWKEAISLlkklgDYKDAIEYAVKSSN 124
CLH smart00299
Clathrin heavy chain repeat homology;
644-768 2.54e-05

Clathrin heavy chain repeat homology;


Pssm-ID: 128594 [Multi-domain]  Cd Length: 140  Bit Score: 44.96  E-value: 2.54e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523   644 QAIRYMEFCVNvLGETEQAIHNYLLSLYARGQPASLLAYLEQAGAsphrvHYDLKYALRLCAEHGHHRACVHVYKVLELY 723
Cdd:smart00299  25 ELIPYLESALK-LNSENPALQTKLIELYAKYDPQKEIERLDNKSN-----HYDIEKVGKLCEKAKLYEEAVELYKKDGNF 98

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 157817523   724 EEAVDLALQ--VDVDLAKQCAdlpeeDEELRKKLWLKIARHVVQEEE 768
Cdd:smart00299  99 KDAIVTLIEhlGNYEKAIEYF-----VKQNNPELWAEVLKALLDKPR 140
zf-C3HC4_2 pfam13923
Zinc finger, C3HC4 type (RING finger);
852-886 7.29e-03

Zinc finger, C3HC4 type (RING finger);


Pssm-ID: 404756 [Multi-domain]  Cd Length: 40  Bit Score: 35.11  E-value: 7.29e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 157817523  852 KCSTCdFPLLNRPFYLFLCGHMFHADCLLQAVRPG 886
Cdd:pfam13923   1 MCPIC-MDMLKDPSTTTPCGHVFCQDCILRALEAS 34
 
Name Accession Description Interval E-value
Pep3_Vps18 pfam05131
Pep3/Vps18/deep orange family; This region is found in a number of protein identified as ...
 291-434 3.62e-51

Pep3/Vps18/deep orange family; This region is found in a number of protein identified as involved in golgi function and vacuolar sorting. The molecular function of this region is unknown. The members of this family contain a C-terminal ring finger domain.


Pssm-ID: 461557  Cd Length: 147  Bit Score: 176.55  E-value: 3.62e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  291 GVLYGSLDCG--RPDSLLSEEKVWEYPAGIGPGANPPLAIVLTQFHFLLLLADRVEAVCTLTGQVVLRDHFLEKFGP-LR 367
Cdd:pfam05131   1 GIYHGELNFSssLGDKVLSSAKLLPYPELPKGSQEPPLSIALTEFHILLLYGDRVVAVNRLNGEVVFEESLPLSPGEkLL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 157817523  368 HMVKDSSTGHLWAYTERAVFRYHVQREARDVWRTYLDMNRFDLAKEYCReRPDCLDTVLAREADFCF 434
Cdd:pfam05131  81 GLTADPVKNTFWLYTDQSIFEIVVTDEDRDVWKIYLEKGQFDLALQYAK-NPAQRDAVLTAQADYLF 146
RING-H2_Vps18 cd16689
RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and ...
 851-949 6.11e-16

RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 18 (Vps18) and similar proteins; Vps18 is an ubiquitin ligase E3 that is highly expressed in heart. It induces the ubiquitylation and degradation of serum-inducible kinase. Vps18 associates with Vps11, Vps16, and Vps33 to form a Class C Vps core complex that is required for soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNARE)-mediated membrane fusion at the lysosome-like yeast vacuole. The core complex, together with two additional compartment-specific subunits, forms the tethering complexes HOPS (homotypic vacuole fusion and protein sorting) and CORVET (class C core vacuole/endosome transport). CORVET contains the additional Vps3 and Vps8 subunits. It operates at endosomes, controls traffic into late endosomes and interacts with the Rab5/Vps21-GTP form. HOPS contains the additional Vps39 and Vps41 subunits. It operates at the lysosomal vacuole, controls all traffic from late endosomes into the vacuole and interacts with the Rab7/Ypt7-GTP form. Vps18 deficiency inhibits dendritogenesis in Purkinje cells by blocking the lysosomal degradation of lysyl oxidase. Vps18 contains a clathrin heavy chain repeat, a coiled-coil domain, and a C3H2C3-type RING-H2 finger domain close to its C-terminus. This subfamily also includes Vps18 homologs found in insects and fungi, such as Drosophila melanogaster protein Dor (encoded by deep orange (dor) gene), and Saccharomyces cerevisiae vacuolar membrane protein Pep3p, also known as carboxypeptidase Y-deficient protein 3, or vacuolar morphogenesis protein 8. Drosophila Dor is part of a protein complex, that also includes the Sep1p homolog carnation (car), which localizes to endosomal compartments and is required not only for the biogenesis of pigment granules but also for the normal delivery of proteins to lysosomes. Pep3p is a vacuolar peripheral membrane protein that is required for vacuolar biogenesis in Saccharomyces cerevisiae. Pep3p associates with Pep5p to form a core Pep3p/Pep5p complex that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins at multiple steps in transport routes to the vacuole.


Pssm-ID: 438350  Cd Length: 45  Bit Score: 72.52  E-value: 6.11e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523 851 DKCSTCDFPLLNRPFYLFLCGHMFHADCLLQavrpglptykqarleelqrklgtappptkgsvkakeaeagaaavgpsre 930
Cdd:cd16689    1 EKCAACDFPLLNRPFYLFLCGHMFHYDCLEQ------------------------------------------------- 31

                         90
                 ....*....|....*....
gi 157817523 931 qlkadLDELVAAECVYCGE 949
Cdd:cd16689   32 -----IDDIIAAECVYCGE 45
RING-H2_Pep3p-like cd16462
RING finger, H2 subclass, found in Saccharomyces cerevisiae vacuolar membrane protein PEP3 ...
 851-952 5.47e-14

RING finger, H2 subclass, found in Saccharomyces cerevisiae vacuolar membrane protein PEP3 (Pep3p) and similar proteins; Pep3p, also known as carboxypeptidase Y-deficient protein 3, vacuolar morphogenesis protein 8, vacuolar protein sorting-associated protein 18 (Vps18p), or vacuolar protein-targeting protein 18, is a vacuolar membrane protein that affects late Golgi functions required for vacuolar protein sorting and efficient alpha-factor prohormone maturation. It is required for vacuolar biogenesis and for trafficking of hydrolase precursors to the vacuole. The disruption of PEP3 may cause hypersensitivity to heat shock and ethanol stresses, probably due to disappearance of normal vacuoles. As a component of the homotypic fusion and vacuole protein sorting (HOPS) and class C core vacuole/endosome tethering (CORVET) complexes, its overexpression shortens lag phase but does not alter growth rate in Saccharomyces cerevisiae exposed to acetic acid stress. Moreover, Pep3p forms the Class C Vps protein complex (C-Vps complex) with Pep5p (also known as Vps11), Vps16, and Vps33, and is necessary for trafficking of hydrolase precursors to the vacuole by promoting vesicular docking reactions with SNARE proteins. Pep3p contains a C3H2C3-type RING-H2 finger at the C-terminus.


Pssm-ID: 438125 [Multi-domain]  Cd Length: 50  Bit Score: 66.94  E-value: 5.47e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523 851 DKCSTCDFPLLNRPFYLFLCGHMFHADCLLQAVrpglptykqarleelqrklgtappptkgsvkakeaeagaaavgpsre 930
Cdd:cd16462    1 EKCAVCGRPLLTRQFYVFPCQHAFHADCLIEEV----------------------------------------------- 33

                         90       100
                 ....*....|....*....|..
gi 157817523 931 qlkadLDELVAAECVYCGELMI 952
Cdd:cd16462   34 -----LDDLIASECPLCGELMI 50
RING-H2_Vps cd16484
RING finger, H2 subclass, found in vacuolar protein sorting-associated proteins Vps8, Vps11, ...
 852-885 1.44e-08

RING finger, H2 subclass, found in vacuolar protein sorting-associated proteins Vps8, Vps11, Vps18, Vps41, and similar proteins; This subfamily corresponds to a group of vacuolar protein sorting-associated proteins containing a C-terminal C3H2C3-type RING-H2 finger, which includes Vps8, Vps11, Vps18, and Vps41. Vps11 and Vps18 associate with Vps16 and Vps33 to form a Class C Vps core complex that is required for soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNARE)-mediated membrane fusion at the lysosome-like yeast vacuole. The core complex, together with two additional compartment-specific subunits, forms the tethering complexes HOPS (homotypic vacuole fusion and protein sorting) and CORVET (class C core vacuole/endosome transport). CORVET contains the additional Vps3 and Vps8 subunits. It operates at endosomes, controls traffic into late endosomes and interacts with the Rab5/Vps21-GTP form. HOPS contains the additional Vps39 and Vps41 subunits. It operates at the lysosomal vacuole, controls all traffic from late endosomes into the vacuole and interacts with the Rab7/Ypt7-GTP form.


Pssm-ID: 438147  Cd Length: 48  Bit Score: 51.73  E-value: 1.44e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 157817523 852 KCSTCDFPLL------NRPFYLFLCGHMFHADCLLQAVRP 885
Cdd:cd16484    1 KCPICTLPLKesdvgaNSPVVVFFCGHMFHKFCLPELSMT 40
Clathrin pfam00637
Region in Clathrin and VPS; Each region is about 140 amino acids long. The regions are ...
 615-743 2.95e-06

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: 47.64  E-value: 2.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523  615 IEMGSRLDARQLIPALVnysqggDAQQVSQAIRYMEFCVNVLGETEQAIHNYLLSLYAR-GQPASLLAYLEQAGasphrv 693
Cdd:pfam00637   2 IESTDPIDVSRVVKLFE------KAGLLEELISYLESALKEDSRENPALQTALIELYAKyDDPEELEEFLKKNN------ 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 157817523  694 HYDLKYALRLCAEHGHHRACVHVYKVLELYEEAVDL-----ALQVDVDLAKQCAD 743
Cdd:pfam00637  70 NYDLEKVAKLCEKADLYEEAVILYKKIGNWKEAISLlkklgDYKDAIEYAVKSSN 124
CLH smart00299
Clathrin heavy chain repeat homology;
644-768 2.54e-05

Clathrin heavy chain repeat homology;


Pssm-ID: 128594 [Multi-domain]  Cd Length: 140  Bit Score: 44.96  E-value: 2.54e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157817523   644 QAIRYMEFCVNvLGETEQAIHNYLLSLYARGQPASLLAYLEQAGAsphrvHYDLKYALRLCAEHGHHRACVHVYKVLELY 723
Cdd:smart00299  25 ELIPYLESALK-LNSENPALQTKLIELYAKYDPQKEIERLDNKSN-----HYDIEKVGKLCEKAKLYEEAVELYKKDGNF 98

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 157817523   724 EEAVDLALQ--VDVDLAKQCAdlpeeDEELRKKLWLKIARHVVQEEE 768
Cdd:smart00299  99 KDAIVTLIEhlGNYEKAIEYF-----VKQNNPELWAEVLKALLDKPR 140
RING-H2_Vps11 cd16688
RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 11 homolog ...
 851-879 6.01e-04

RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 11 homolog (Vps11) and similar proteins; Vps11, also known as RING finger protein 108 (RNF108), is a soluble protein involved in regulation of glycolipid degradation and retrograde toxin transport. It is highly expressed in heart and pancreas. Vps11 associates with Vps16, Vps18, and Vps33 to form a Class C Vps core complex that is required for soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNARE)-mediated membrane fusion at the lysosome-like yeast vacuole. The core complex, together with two additional compartment-specific subunits, forms the tethering complexes HOPS (homotypic vacuole fusion and protein sorting) and CORVET (class C core vacuole/endosome transport). CORVET contains the additional Vps3 and Vps8 subunits. It operates at endosomes, controls traffic into late endosomes and interacts with the Rab5/Vps21-GTP form. HOPS contains the additional Vps39 and Vps41 subunits. It operates at the lysosomal vacuole, controls all traffic from late endosomes into the vacuole and interacts with the Rab7/Ypt7-GTP form. Vps11 is a central scaffold protein upon which both HOPS and CORVET assemble. The HOPS and CORVET complexes disassemble in the absence of Vps11, resulting in massive fragmentation of vacuoles. Vps11 contains a clathrin repeat domain and a C-terminal C3H2C3-type RING-H2 finger. This subfamily also includes Vps11 homologs found in fungi, such as Saccharomyces cerevisiae vacuolar membrane protein Pep5p, also known as carboxypeptidase Y-deficient protein 5, vacuolar morphogenesis protein 1, or vacuolar biogenesis protein END1. Pep5p is essential for vacuolar biogenesis. It associates with Pep3p to form a core Pep3p/Pep5p complex that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins at multiple steps in transport routes to the vacuole.


Pssm-ID: 438349 [Multi-domain]  Cd Length: 44  Bit Score: 38.48  E-value: 6.01e-04
                         10        20        30
                 ....*....|....*....|....*....|
gi 157817523 851 DKCSTCDFPL-LnrPFYLFLCGHMFHADCL 879
Cdd:cd16688    1 TKCSACGSTLdL--PSVHFLCGHSFHQHCL 28
zf-C3HC4_2 pfam13923
Zinc finger, C3HC4 type (RING finger);
852-886 7.29e-03

Zinc finger, C3HC4 type (RING finger);


Pssm-ID: 404756 [Multi-domain]  Cd Length: 40  Bit Score: 35.11  E-value: 7.29e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 157817523  852 KCSTCdFPLLNRPFYLFLCGHMFHADCLLQAVRPG 886
Cdd:pfam13923   1 MCPIC-MDMLKDPSTTTPCGHVFCQDCILRALEAS 34
 
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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