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Conserved domains on  [gi|281485582|ref|NP_001100910|]
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VPS9 domain-containing protein 1 isoform 1 [Rattus norvegicus]

Protein Classification

MIT and VPS9 domain-containing protein( domain architecture ID 10219220)

MIT and VPS9 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VPS9 pfam02204
Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). ...
 526-641 2.15e-27

Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). It activates Rab GTPases by stimulating the release of GDP and allowing GTP to bind.


:

Pssm-ID: 460489  Cd Length: 104  Bit Score: 106.53  E-value: 2.15e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582  526 YCTAAQELGLLVLESCPQKKLECIVRTLRVICICAedycraqearpegGSQPPAAAIGADDLLPILSFVVLRSGLPQLVS 605
Cdd:pfam02204   1 WEQAQQELKKLNEAKSPREKLKCLLRTCKLITEAL-------------SKSNRDESLGADDLLPILIYVLIRANPPNLYS 67

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 281485582  606 ECAALEEFTHEGYLIGEEGYCLTSLQSALSYVELLS 641
Cdd:pfam02204  68 NLQFISEFRDPDLLSGEEGYYLTTLEAALEFIESLD 103
MIT super family cl45962
MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric ...
 13-81 2.96e-03

MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric three-helix bundle and binds ESCRT-III (endosomal sorting complexes required for transport) substrates.


The actual alignment was detected with superfamily member pfam04212:

Pssm-ID: 461228  Cd Length: 66  Bit Score: 36.36  E-value: 2.96e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582   13 LQSAMKLANKAIELDTGNRPREAYMEYLRSIRYISQVLledventtaGETVPPETSKMLK-LAEQCLERA 81
Cdd:pfam04212   1 LSKALELVKKAVEEDNAGNYEEALELYKEALDYLLLAL---------KETKNEERRELLRaKIAEYLERA 61
 
Name Accession Description Interval E-value
VPS9 pfam02204
Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). ...
 526-641 2.15e-27

Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). It activates Rab GTPases by stimulating the release of GDP and allowing GTP to bind.


Pssm-ID: 460489  Cd Length: 104  Bit Score: 106.53  E-value: 2.15e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582  526 YCTAAQELGLLVLESCPQKKLECIVRTLRVICICAedycraqearpegGSQPPAAAIGADDLLPILSFVVLRSGLPQLVS 605
Cdd:pfam02204   1 WEQAQQELKKLNEAKSPREKLKCLLRTCKLITEAL-------------SKSNRDESLGADDLLPILIYVLIRANPPNLYS 67

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 281485582  606 ECAALEEFTHEGYLIGEEGYCLTSLQSALSYVELLS 641
Cdd:pfam02204  68 NLQFISEFRDPDLLSGEEGYYLTTLEAALEFIESLD 103
VPS9 smart00167
Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.
 532-642 2.41e-12

Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.


Pssm-ID: 128469  Cd Length: 117  Bit Score: 64.01  E-value: 2.41e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582   532 ELGLLVLESCPQKKLECIVRTLRVICICAEDYCRAQearpeggsqppaaaIGADDLLPILSFVVLRSGLPQLVSECAALE 611
Cdd:smart00167   8 ELKFLQLYKSPSDKIKCLLRACKLIYTLLETQSGEV--------------AGADDFLPVLIYVIIKCDPRDLLLNAEYME 73

                           90       100       110
                   ....*....|....*....|....*....|.
gi 281485582   612 EFTHEGYLIGEEGYCLTSLQSALSYVELLSR 642
Cdd:smart00167  74 EFLEPSLLTGEGGYYLTSLSAALALIKGLTE 104
MIT pfam04212
MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric ...
 13-81 2.96e-03

MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric three-helix bundle and binds ESCRT-III (endosomal sorting complexes required for transport) substrates.


Pssm-ID: 461228  Cd Length: 66  Bit Score: 36.36  E-value: 2.96e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582   13 LQSAMKLANKAIELDTGNRPREAYMEYLRSIRYISQVLledventtaGETVPPETSKMLK-LAEQCLERA 81
Cdd:pfam04212   1 LSKALELVKKAVEEDNAGNYEEALELYKEALDYLLLAL---------KETKNEERRELLRaKIAEYLERA 61
 
Name Accession Description Interval E-value
VPS9 pfam02204
Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). ...
 526-641 2.15e-27

Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). It activates Rab GTPases by stimulating the release of GDP and allowing GTP to bind.


Pssm-ID: 460489  Cd Length: 104  Bit Score: 106.53  E-value: 2.15e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582  526 YCTAAQELGLLVLESCPQKKLECIVRTLRVICICAedycraqearpegGSQPPAAAIGADDLLPILSFVVLRSGLPQLVS 605
Cdd:pfam02204   1 WEQAQQELKKLNEAKSPREKLKCLLRTCKLITEAL-------------SKSNRDESLGADDLLPILIYVLIRANPPNLYS 67

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 281485582  606 ECAALEEFTHEGYLIGEEGYCLTSLQSALSYVELLS 641
Cdd:pfam02204  68 NLQFISEFRDPDLLSGEEGYYLTTLEAALEFIESLD 103
VPS9 smart00167
Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.
 532-642 2.41e-12

Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.


Pssm-ID: 128469  Cd Length: 117  Bit Score: 64.01  E-value: 2.41e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582   532 ELGLLVLESCPQKKLECIVRTLRVICICAEDYCRAQearpeggsqppaaaIGADDLLPILSFVVLRSGLPQLVSECAALE 611
Cdd:smart00167   8 ELKFLQLYKSPSDKIKCLLRACKLIYTLLETQSGEV--------------AGADDFLPVLIYVIIKCDPRDLLLNAEYME 73

                           90       100       110
                   ....*....|....*....|....*....|.
gi 281485582   612 EFTHEGYLIGEEGYCLTSLQSALSYVELLSR 642
Cdd:smart00167  74 EFLEPSLLTGEGGYYLTSLSAALALIKGLTE 104
MIT pfam04212
MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric ...
 13-81 2.96e-03

MIT (microtubule interacting and transport) domain; The MIT domain forms an asymmetric three-helix bundle and binds ESCRT-III (endosomal sorting complexes required for transport) substrates.


Pssm-ID: 461228  Cd Length: 66  Bit Score: 36.36  E-value: 2.96e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 281485582   13 LQSAMKLANKAIELDTGNRPREAYMEYLRSIRYISQVLledventtaGETVPPETSKMLK-LAEQCLERA 81
Cdd:pfam04212   1 LSKALELVKKAVEEDNAGNYEEALELYKEALDYLLLAL---------KETKNEERRELLRaKIAEYLERA 61
 
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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