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Conserved domains on  [gi|19114253|ref|NP_593341|]
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GARP complex subunit Vps53 [Schizosaccharomyces pombe]

Protein Classification

Vps53-like N-terminal domain-containing protein( domain architecture ID 11147655)

Vps53-like N-terminal domain-containing protein similar to Arabidopsis thaliana vacuolar protein sorting-associated protein 53 B that is involved in retrograde transport from early and late endosomes to late Golgi, leading to the membrane fusion between late Golgi and endosomal vesicles

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Vps53_N pfam04100
Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex ...
 17-393 1.92e-170

Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex involved in regulating membrane trafficking events.


:

Pssm-ID: 427710  Cd Length: 372  Bit Score: 494.66  E-value: 1.92e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    17 NEFKFVETLHELLPEDITYDDLGSLRlslsERLQESVKKLDANKKTYEDAKLSMGEK----MDDLNSSIVSLLQELSTLQ 92
Cdd:pfam04100   1 PDFSAVEYINELFPTEQSLTNIDELI----QKLQEEIRKLDNNIKTVVRGQANVGEKgeeaLDEAQKAIRSLFQKIKEIK 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    93 SVAENTQSSIVQMTSEIKNLDFAKQNLATSMTMLKRLQMLVTAYEKLRTLRQNQKFGEAISLMQATLQLLNFFKKYRSVE 172
Cdd:pfam04100  77 SVAESTEEMVKEITRDIKQLDIAKRNLTTSITTLHHLHMLVTGVESLNALLSKRSYGEAASPLQAILQLLNHFIKYKSVD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   173 RIASLSRSISEFQKSFYEQVFDTFQSQFKkeSGMRGGFSPS-SVQYLNELCRFIDIFAGDPPESVIRWYCRHQLEDFMKV 251
Cdd:pfam04100 157 EIANLSESISKLKGSLLSQIFQDFKSAFS--GGSQGEHRTGlLLQLLEDACRVADILDPSVKEELIKWFIDQQLEEYKEI 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   252 FRENEEAGSLENLPRRYTWFKKLLQTYDQLHKPIFPPHWKVDFRLYEVFCEETKNDLSKLL--KDDRLSLQVFVASLEQT 329
Cdd:pfam04100 235 FRENEEAAWLDKLDRRYAWFKRILNDFEEKYGPIFPADWEMAERLTVEFCHQTRKDLAKILkrRDKEPSVKLLLFALQST 314

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19114253   330 LEFESFIDHRFyntksrFNSNFEPKERQAYNALSSVFEPHYTLYFNQQSQEFSILFENFALEKQ 393
Cdd:pfam04100 315 LEFEKFLDKRF------SKKTPEPKELAFHGAISSCFEPHLTLYINSQEKTLSELFDKFVSEPK 372
VPS53_C super family cl25158
Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of ...
 572-710 4.73e-03

Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of fungal vacuolar protein sorting-associated protein 53.


The actual alignment was detected with superfamily member pfam16854:

Pssm-ID: 407097  Cd Length: 203  Bit Score: 39.25  E-value: 4.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   572 NFCDRSCESFTRQFLNAIY-LAKPISEVG----------------AEQLLLDLYSFKNALLKLPD-LKQDYSITDSYIN- 632
Cdd:pfam16854   3 NFLDKVIDLITQEFLGCIIkLLQPKPPFAtlnskrkldvkqviniGEQLLLDVELLKQILHSLPEsMSGDNSTQSTSYKr 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   633 ---HLTIFMGYIETVLKTLLTPASPKAGFIQSYIFLVKDRSVTNF-TVLLELKGVgKSDISSFLQQFSDFVKKTPQLEES 708
Cdd:pfam16854  83 vkkHIDTNIEQLLSFIKLLVAPLDSPEDYHETYKRLTGNNTNSLVwAFILALKGV-PWDLALWKQYWSAFKLKLEEKDAT 161


                  ..
gi 19114253   709 SP 710
Cdd:pfam16854 162 EN 163
 
Name Accession Description Interval E-value
Vps53_N pfam04100
Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex ...
 17-393 1.92e-170

Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex involved in regulating membrane trafficking events.


Pssm-ID: 427710  Cd Length: 372  Bit Score: 494.66  E-value: 1.92e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    17 NEFKFVETLHELLPEDITYDDLGSLRlslsERLQESVKKLDANKKTYEDAKLSMGEK----MDDLNSSIVSLLQELSTLQ 92
Cdd:pfam04100   1 PDFSAVEYINELFPTEQSLTNIDELI----QKLQEEIRKLDNNIKTVVRGQANVGEKgeeaLDEAQKAIRSLFQKIKEIK 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    93 SVAENTQSSIVQMTSEIKNLDFAKQNLATSMTMLKRLQMLVTAYEKLRTLRQNQKFGEAISLMQATLQLLNFFKKYRSVE 172
Cdd:pfam04100  77 SVAESTEEMVKEITRDIKQLDIAKRNLTTSITTLHHLHMLVTGVESLNALLSKRSYGEAASPLQAILQLLNHFIKYKSVD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   173 RIASLSRSISEFQKSFYEQVFDTFQSQFKkeSGMRGGFSPS-SVQYLNELCRFIDIFAGDPPESVIRWYCRHQLEDFMKV 251
Cdd:pfam04100 157 EIANLSESISKLKGSLLSQIFQDFKSAFS--GGSQGEHRTGlLLQLLEDACRVADILDPSVKEELIKWFIDQQLEEYKEI 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   252 FRENEEAGSLENLPRRYTWFKKLLQTYDQLHKPIFPPHWKVDFRLYEVFCEETKNDLSKLL--KDDRLSLQVFVASLEQT 329
Cdd:pfam04100 235 FRENEEAAWLDKLDRRYAWFKRILNDFEEKYGPIFPADWEMAERLTVEFCHQTRKDLAKILkrRDKEPSVKLLLFALQST 314

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19114253   330 LEFESFIDHRFyntksrFNSNFEPKERQAYNALSSVFEPHYTLYFNQQSQEFSILFENFALEKQ 393
Cdd:pfam04100 315 LEFEKFLDKRF------SKKTPEPKELAFHGAISSCFEPHLTLYINSQEKTLSELFDKFVSEPK 372
VPS53_C pfam16854
Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of ...
 572-710 4.73e-03

Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of fungal vacuolar protein sorting-associated protein 53.


Pssm-ID: 407097  Cd Length: 203  Bit Score: 39.25  E-value: 4.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   572 NFCDRSCESFTRQFLNAIY-LAKPISEVG----------------AEQLLLDLYSFKNALLKLPD-LKQDYSITDSYIN- 632
Cdd:pfam16854   3 NFLDKVIDLITQEFLGCIIkLLQPKPPFAtlnskrkldvkqviniGEQLLLDVELLKQILHSLPEsMSGDNSTQSTSYKr 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   633 ---HLTIFMGYIETVLKTLLTPASPKAGFIQSYIFLVKDRSVTNF-TVLLELKGVgKSDISSFLQQFSDFVKKTPQLEES 708
Cdd:pfam16854  83 vkkHIDTNIEQLLSFIKLLVAPLDSPEDYHETYKRLTGNNTNSLVwAFILALKGV-PWDLALWKQYWSAFKLKLEEKDAT 161


                  ..
gi 19114253   709 SP 710
Cdd:pfam16854 162 EN 163
 
Name Accession Description Interval E-value
Vps53_N pfam04100
Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex ...
 17-393 1.92e-170

Vps53-like, N-terminal; Vps53 complexes with Vps52 and Vps54 to form a multi- subunit complex involved in regulating membrane trafficking events.


Pssm-ID: 427710  Cd Length: 372  Bit Score: 494.66  E-value: 1.92e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    17 NEFKFVETLHELLPEDITYDDLGSLRlslsERLQESVKKLDANKKTYEDAKLSMGEK----MDDLNSSIVSLLQELSTLQ 92
Cdd:pfam04100   1 PDFSAVEYINELFPTEQSLTNIDELI----QKLQEEIRKLDNNIKTVVRGQANVGEKgeeaLDEAQKAIRSLFQKIKEIK 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253    93 SVAENTQSSIVQMTSEIKNLDFAKQNLATSMTMLKRLQMLVTAYEKLRTLRQNQKFGEAISLMQATLQLLNFFKKYRSVE 172
Cdd:pfam04100  77 SVAESTEEMVKEITRDIKQLDIAKRNLTTSITTLHHLHMLVTGVESLNALLSKRSYGEAASPLQAILQLLNHFIKYKSVD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   173 RIASLSRSISEFQKSFYEQVFDTFQSQFKkeSGMRGGFSPS-SVQYLNELCRFIDIFAGDPPESVIRWYCRHQLEDFMKV 251
Cdd:pfam04100 157 EIANLSESISKLKGSLLSQIFQDFKSAFS--GGSQGEHRTGlLLQLLEDACRVADILDPSVKEELIKWFIDQQLEEYKEI 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   252 FRENEEAGSLENLPRRYTWFKKLLQTYDQLHKPIFPPHWKVDFRLYEVFCEETKNDLSKLL--KDDRLSLQVFVASLEQT 329
Cdd:pfam04100 235 FRENEEAAWLDKLDRRYAWFKRILNDFEEKYGPIFPADWEMAERLTVEFCHQTRKDLAKILkrRDKEPSVKLLLFALQST 314

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19114253   330 LEFESFIDHRFyntksrFNSNFEPKERQAYNALSSVFEPHYTLYFNQQSQEFSILFENFALEKQ 393
Cdd:pfam04100 315 LEFEKFLDKRF------SKKTPEPKELAFHGAISSCFEPHLTLYINSQEKTLSELFDKFVSEPK 372
VPS53_C pfam16854
Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of ...
 572-710 4.73e-03

Vacuolar protein sorting-associated protein 53 C-terminus; This is the C-terminal domain of fungal vacuolar protein sorting-associated protein 53.


Pssm-ID: 407097  Cd Length: 203  Bit Score: 39.25  E-value: 4.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   572 NFCDRSCESFTRQFLNAIY-LAKPISEVG----------------AEQLLLDLYSFKNALLKLPD-LKQDYSITDSYIN- 632
Cdd:pfam16854   3 NFLDKVIDLITQEFLGCIIkLLQPKPPFAtlnskrkldvkqviniGEQLLLDVELLKQILHSLPEsMSGDNSTQSTSYKr 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114253   633 ---HLTIFMGYIETVLKTLLTPASPKAGFIQSYIFLVKDRSVTNF-TVLLELKGVgKSDISSFLQQFSDFVKKTPQLEES 708
Cdd:pfam16854  83 vkkHIDTNIEQLLSFIKLLVAPLDSPEDYHETYKRLTGNNTNSLVwAFILALKGV-PWDLALWKQYWSAFKLKLEEKDAT 161


                  ..
gi 19114253   709 SP 710
Cdd:pfam16854 162 EN 163
 
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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