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Conserved domains on  [gi|688574485|ref|XP_009303639|]
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rab5 GDP/GTP exchange factor isoform X3 [Danio rerio]

Protein Classification

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). ...
 325-425 1.03e-33

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: 123.48  E-value: 1.03e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688574485  325 KAITDIIEMDSKRVPRDKLACITSCSKHIFNAIRVTKN-EPASADDFLPTLIYIVLKANPPRLQSNIQYITRFCNPSRlM 403
Cdd:pfam02204   3 QAQQELKKLNEAKSPREKLKCLLRTCKLITEALSKSNRdESLGADDLLPILIYVLIRANPPNLYSNLQFISEFRDPDL-L 81

                          90       100
                  ....*....|....*....|..
gi 688574485  404 TGEDGYYFTNLCCAVAFIEKLD 425
Cdd:pfam02204  82 SGEEGYYLTTLEAALEFIESLD 103
DUF5601 pfam18151
Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 ...
 212-275 5.98e-19

Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 present in Homo sapiens. RABEX, also known as Rab GTPase exchange factors, regulate endocytic trafficking through activation of the Rab families RAB5, RAB21 and RAB22. The domain is helical in nature.


:

Pssm-ID: 465668  Cd Length: 65  Bit Score: 80.71  E-value: 5.98e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 688574485  212 KHSRAFIDSMgnKKQDLSAEELSECVQDFYQGMSDRLLNH--FKG-SSEKVDRVMDQVEKYIMTRLY 275
Cdd:pfam18151   1 KQIRSFIERF--QNLDSTIDEQSELVQDFYQFMADRLLSHplWKGaSDEQLEQLLDGVEKYIMTKLY 65
zf-A20 pfam01754
A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding ...
 17-40 1.34e-10

A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding Domain. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation.


:

Pssm-ID: 460313  Cd Length: 24  Bit Score: 55.97  E-value: 1.34e-10
                          10        20
                  ....*....|....*....|....
gi 688574485   17 LLCKKGCGYYGNAAWQGLCSKCWR 40
Cdd:pfam01754   1 LLCRNGCGFYGSPATNGLCSKCYK 24
 
Name Accession Description Interval E-value
VPS9 pfam02204
Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). ...
 325-425 1.03e-33

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: 123.48  E-value: 1.03e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688574485  325 KAITDIIEMDSKRVPRDKLACITSCSKHIFNAIRVTKN-EPASADDFLPTLIYIVLKANPPRLQSNIQYITRFCNPSRlM 403
Cdd:pfam02204   3 QAQQELKKLNEAKSPREKLKCLLRTCKLITEALSKSNRdESLGADDLLPILIYVLIRANPPNLYSNLQFISEFRDPDL-L 81

                          90       100
                  ....*....|....*....|..
gi 688574485  404 TGEDGYYFTNLCCAVAFIEKLD 425
Cdd:pfam02204  82 SGEEGYYLTTLEAALEFIESLD 103
VPS9 smart00167
Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.
 333-438 1.15e-28

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


Pssm-ID: 128469  Cd Length: 117  Bit Score: 109.85  E-value: 1.15e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688574485   333 MDSKRVPRDKLACITSCSKHIFNAIRVTKNEPASADDFLPTLIYIVLKANPPRLQSNIQYITRFCNPsRLMTGEDGYYFT 412
Cdd:smart00167  12 LQLYKSPSDKIKCLLRACKLIYTLLETQSGEVAGADDFLPVLIYVIIKCDPRDLLLNAEYMEEFLEP-SLLTGEGGYYLT 90

                           90       100
                   ....*....|....*....|....*..
gi 688574485   413 NLCCAVAFIEKL-DAQSLNLSPEDFER 438
Cdd:smart00167  91 SLSAALALIKGLtEAHALPLSPEQELE 117
DUF5601 pfam18151
Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 ...
 212-275 5.98e-19

Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 present in Homo sapiens. RABEX, also known as Rab GTPase exchange factors, regulate endocytic trafficking through activation of the Rab families RAB5, RAB21 and RAB22. The domain is helical in nature.


Pssm-ID: 465668  Cd Length: 65  Bit Score: 80.71  E-value: 5.98e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 688574485  212 KHSRAFIDSMgnKKQDLSAEELSECVQDFYQGMSDRLLNH--FKG-SSEKVDRVMDQVEKYIMTRLY 275
Cdd:pfam18151   1 KQIRSFIERF--QNLDSTIDEQSELVQDFYQFMADRLLSHplWKGaSDEQLEQLLDGVEKYIMTKLY 65
zf-A20 pfam01754
A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding ...
 17-40 1.34e-10

A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding Domain. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation.


Pssm-ID: 460313  Cd Length: 24  Bit Score: 55.97  E-value: 1.34e-10
                          10        20
                  ....*....|....*....|....
gi 688574485   17 LLCKKGCGYYGNAAWQGLCSKCWR 40
Cdd:pfam01754   1 LLCRNGCGFYGSPATNGLCSKCYK 24
ZnF_A20 smart00259
A20-like zinc fingers; A20- (an inhibitor of cell death)-like zinc fingers. The zinc finger ...
 16-40 9.19e-07

A20-like zinc fingers; A20- (an inhibitor of cell death)-like zinc fingers. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappaB activation.


Pssm-ID: 128555  Cd Length: 26  Bit Score: 45.27  E-value: 9.19e-07
                           10        20
                   ....*....|....*....|....*.
gi 688574485    16 ELLC-KKGCGYYGNAAWQGLCSKCWR 40
Cdd:smart00259   1 PIKCrRPGCGFFGNPATEGLCSKCFK 26
 
Name Accession Description Interval E-value
VPS9 pfam02204
Vacuolar sorting protein 9 (VPS9) domain; This domain acts as a GDP-GTP exchange factor (GEF). ...
 325-425 1.03e-33

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: 123.48  E-value: 1.03e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688574485  325 KAITDIIEMDSKRVPRDKLACITSCSKHIFNAIRVTKN-EPASADDFLPTLIYIVLKANPPRLQSNIQYITRFCNPSRlM 403
Cdd:pfam02204   3 QAQQELKKLNEAKSPREKLKCLLRTCKLITEALSKSNRdESLGADDLLPILIYVLIRANPPNLYSNLQFISEFRDPDL-L 81

                          90       100
                  ....*....|....*....|..
gi 688574485  404 TGEDGYYFTNLCCAVAFIEKLD 425
Cdd:pfam02204  82 SGEEGYYLTTLEAALEFIESLD 103
VPS9 smart00167
Domain present in VPS9; Domain present in yeast vacuolar sorting protein 9 and other proteins.
 333-438 1.15e-28

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


Pssm-ID: 128469  Cd Length: 117  Bit Score: 109.85  E-value: 1.15e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 688574485   333 MDSKRVPRDKLACITSCSKHIFNAIRVTKNEPASADDFLPTLIYIVLKANPPRLQSNIQYITRFCNPsRLMTGEDGYYFT 412
Cdd:smart00167  12 LQLYKSPSDKIKCLLRACKLIYTLLETQSGEVAGADDFLPVLIYVIIKCDPRDLLLNAEYMEEFLEP-SLLTGEGGYYLT 90

                           90       100
                   ....*....|....*....|....*..
gi 688574485   413 NLCCAVAFIEKL-DAQSLNLSPEDFER 438
Cdd:smart00167  91 SLSAALALIKGLtEAHALPLSPEQELE 117
DUF5601 pfam18151
Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 ...
 212-275 5.98e-19

Domain of unknown function (DUF5601); This domain is found in the catalytic core RABEX-5 present in Homo sapiens. RABEX, also known as Rab GTPase exchange factors, regulate endocytic trafficking through activation of the Rab families RAB5, RAB21 and RAB22. The domain is helical in nature.


Pssm-ID: 465668  Cd Length: 65  Bit Score: 80.71  E-value: 5.98e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 688574485  212 KHSRAFIDSMgnKKQDLSAEELSECVQDFYQGMSDRLLNH--FKG-SSEKVDRVMDQVEKYIMTRLY 275
Cdd:pfam18151   1 KQIRSFIERF--QNLDSTIDEQSELVQDFYQFMADRLLSHplWKGaSDEQLEQLLDGVEKYIMTKLY 65
zf-A20 pfam01754
A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding ...
 17-40 1.34e-10

A20-like zinc finger; The A20 Zn-finger of bovine/human Rabex5/rabGEF1 is a Ubiquitin Binding Domain. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation.


Pssm-ID: 460313  Cd Length: 24  Bit Score: 55.97  E-value: 1.34e-10
                          10        20
                  ....*....|....*....|....
gi 688574485   17 LLCKKGCGYYGNAAWQGLCSKCWR 40
Cdd:pfam01754   1 LLCRNGCGFYGSPATNGLCSKCYK 24
ZnF_A20 smart00259
A20-like zinc fingers; A20- (an inhibitor of cell death)-like zinc fingers. The zinc finger ...
 16-40 9.19e-07

A20-like zinc fingers; A20- (an inhibitor of cell death)-like zinc fingers. The zinc finger mediates self-association in A20. These fingers also mediate IL-1-induced NF-kappaB activation.


Pssm-ID: 128555  Cd Length: 26  Bit Score: 45.27  E-value: 9.19e-07
                           10        20
                   ....*....|....*....|....*.
gi 688574485    16 ELLC-KKGCGYYGNAAWQGLCSKCWR 40
Cdd:smart00259   1 PIKCrRPGCGFFGNPATEGLCSKCFK 26
 
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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