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Conserved domains on  [gi|1958665589|ref|XP_038944308|]
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TBC1 domain family member 23 isoform X2 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TBC1D23_C pfam19430
TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a ...
 218-442 3.52e-168

TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a family of TBC domain-containing Rab-specific GTPase-activating proteins, which plays a role in endosome-to-Golgi trafficking. It acts as a bridging factor in which the TBC domain binds to Golgi adaptor proteins golgin-97 and golgin-245 and its C-terminal to FAM21 subunit of the WASH complex, which regulates multiple endosomal trafficking routes. TBC1D23 is important for normal brain development, especially in axonal and dendritic growth. This entry represents the C-terminal domain that contains residues for specific FAM21 binding and for the cargo of endosome-derived carriers. It adopts a fold similar to the Pleckstrin homology (PH) domain. Mutations in this protein, and particularly in this domain, are linked with Pontocerebellar hypoplasia (PCH), suggesting that the TBC1D23 C-terminal domain is required for neuronal growth and brain development.


:

Pssm-ID: 437262  Cd Length: 225  Bit Score: 472.34  E-value: 3.52e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 218 SGYGHWIASTSGSRGSISSVDGESCNGSNDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 297
Cdd:pfam19430   1 NGYGHWIASTSGSRSSINSVDGESLNGSGDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 298 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDIKHHFPCKEVKESGHMFPSHL 377
Cdd:pfam19430  81 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDVKHHFPCKEVKESGHMFPSHL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958665589 378 LVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 442
Cdd:pfam19430 161 LVTATHMYCLREIASRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 225
RHOD super family cl00125
Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese ...
 107-148 1.38e-04

Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.


The actual alignment was detected with superfamily member pfam00581:

Pssm-ID: 444705 [Multi-domain]  Cd Length: 92  Bit Score: 40.55  E-value: 1.38e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1958665589 107 VVDCRPAEQYNAGHLSTAFHLDSDLMLQNPSEFAQSVKSLLE 148
Cdd:pfam00581   8 LIDVRPPEEYAKGHIPGAVNVPLSSLSLPPLPLLELLEKLLE 49
 
Name Accession Description Interval E-value
TBC1D23_C pfam19430
TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a ...
 218-442 3.52e-168

TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a family of TBC domain-containing Rab-specific GTPase-activating proteins, which plays a role in endosome-to-Golgi trafficking. It acts as a bridging factor in which the TBC domain binds to Golgi adaptor proteins golgin-97 and golgin-245 and its C-terminal to FAM21 subunit of the WASH complex, which regulates multiple endosomal trafficking routes. TBC1D23 is important for normal brain development, especially in axonal and dendritic growth. This entry represents the C-terminal domain that contains residues for specific FAM21 binding and for the cargo of endosome-derived carriers. It adopts a fold similar to the Pleckstrin homology (PH) domain. Mutations in this protein, and particularly in this domain, are linked with Pontocerebellar hypoplasia (PCH), suggesting that the TBC1D23 C-terminal domain is required for neuronal growth and brain development.


Pssm-ID: 437262  Cd Length: 225  Bit Score: 472.34  E-value: 3.52e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 218 SGYGHWIASTSGSRGSISSVDGESCNGSNDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 297
Cdd:pfam19430   1 NGYGHWIASTSGSRSSINSVDGESLNGSGDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 298 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDIKHHFPCKEVKESGHMFPSHL 377
Cdd:pfam19430  81 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDVKHHFPCKEVKESGHMFPSHL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958665589 378 LVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 442
Cdd:pfam19430 161 LVTATHMYCLREIASRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 225
TBC1D23_C-like cd20788
C-terminal domain of TBC1 domain family member 23, and similar proteins; This family contains ...
 346-460 6.50e-63

C-terminal domain of TBC1 domain family member 23, and similar proteins; This family contains the C-terminal domain of Tre2-Bub2-Cdc16 (TBC) family 23 (TBC1D23), which adopts a Pleckstrin homology (PH) domain fold. It selectively binds to phosphoinositides, in particular, PtdIns(4)P, through one surface while it binds FAM21 via the opposite surface. TBC1D23, which is highly conserved in many eukaryotes but missing in plants and fungi, also possesses an N-terminal domain which is a catalytically inactive TBC domain. TBC1D23 encodes a protein functioning in endosome-to-Golgi trafficking in cells; it is a specificity determinant that links the vesicle to the target membrane. Homozygous mutations of TBC1D23 have been found in patients diagnosed with pontocerebellar hypoplasia (PCH), a group of neurological disorders that affect the brain development, particularly, the pons and cerebellum. Mutation of key residues of TBC1D23 (or FAM21) selectively disrupts the endosomal vesicular trafficking toward the Trans-Golgi Network. This C-terminal domain is missing in some PCH patients.


Pssm-ID: 412053  Cd Length: 115  Bit Score: 199.38  E-value: 6.50e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 346 VNIQTWINKPDIKHHFPCKEVKESGHMFPSHLLVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKY 425
Cdd:cd20788     1 VNLSEWLKKPDVIASFECQEVKENGHMFPSYLLVTETHLYVLREIPDRKGYAKIVVRRPLSSIVKITSKKKHPELITFKY 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1958665589 426 GNSSASGIEILAIERYLIPNAGDATRAIKQQIMKV 460
Cdd:cd20788    81 GTSDDDESEITDMDRFYIPKAGDATKAIKQAILKL 115
Rhodanese pfam00581
Rhodanese-like domain; Rhodanese has an internal duplication. This Pfam represents a single ...
 107-148 1.38e-04

Rhodanese-like domain; Rhodanese has an internal duplication. This Pfam represents a single copy of this duplicated domain. The domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases.


Pssm-ID: 425764 [Multi-domain]  Cd Length: 92  Bit Score: 40.55  E-value: 1.38e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1958665589 107 VVDCRPAEQYNAGHLSTAFHLDSDLMLQNPSEFAQSVKSLLE 148
Cdd:pfam00581   8 LIDVRPPEEYAKGHIPGAVNVPLSSLSLPPLPLLELLEKLLE 49
DSP_MapKP cd01446
N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk ...
 95-206 1.62e-04

N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk Phosphatase. This domain is believed to determine substrate specificity by binding the substrate, such as ERK2, and activating the C-terminal catalytic domain by inducing a conformational change. This domain has homology to the Rhodanese Homology Domain.


Pssm-ID: 238723 [Multi-domain]  Cd Length: 132  Bit Score: 41.50  E-value: 1.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589  95 ANQLQGEGVRFFVVDCRPAEQYNAGHLSTAFHLD-SDLMLQNPSEFAQSVKSLL--EAQRQSIESGSIAggEHLCFMGSG 171
Cdd:cd01446     8 AALLREGGERLLLLDCRPFLEYSSSHIRGAVNVCcPTILRRRLQGGKILLQQLLscPEDRDRLRRGESL--AVVVYDESS 85

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1958665589 172 REE----EDMYMNMVLAHFLQKNKEY--VSIASGGFMALQQ 206
Cdd:cd01446    86 SDRerlrEDSTAESVLGKLLRKLQEGcsVYLLKGGFEQFSS 126
glpE PRK00162
thiosulfate sulfurtransferase GlpE;
94-132 5.90e-03

thiosulfate sulfurtransferase GlpE;


Pssm-ID: 178908 [Multi-domain]  Cd Length: 108  Bit Score: 36.54  E-value: 5.90e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1958665589  94 QANQL--QGEGVrffVVDCRPAEQYNAGHLSTAFHLDSDLM 132
Cdd:PRK00162   11 QAHQKlqEGGAV---LVDIRDPQSFAMGHAPGAFHLTNDSL 48
RHOD smart00450
Rhodanese Homology Domain; An alpha beta fold found duplicated in the Rhodanese protein. The ...
 104-207 6.40e-03

Rhodanese Homology Domain; An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.


Pssm-ID: 197731 [Multi-domain]  Cd Length: 100  Bit Score: 36.28  E-value: 6.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589  104 RFFVVDCRPAEQYNAGHLSTAFHLDSDLMLQNPSEFAQSVKSLLeaqrqsIESGSIAGGEHLCFMGSGreeeDMYMNMVL 183
Cdd:smart00450   4 KVVLLDVRSPEEYEGGHIPGAVNIPLSELLDRRGELDILEFEEL------LKRLGLDKDKPVVVYCRS----GNRSAKAA 73

                           90       100
                   ....*....|....*....|....
gi 1958665589  184 AHFLQKNKEYVSIASGGFMALQQH 207
Cdd:smart00450  74 WLLRELGFKNVYLLDGGYKEWSAA 97
 
Name Accession Description Interval E-value
TBC1D23_C pfam19430
TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a ...
 218-442 3.52e-168

TBC1 domain family member 23 C-terminal; TBC1 domain family member 23 (TBC1D23) belongs to a family of TBC domain-containing Rab-specific GTPase-activating proteins, which plays a role in endosome-to-Golgi trafficking. It acts as a bridging factor in which the TBC domain binds to Golgi adaptor proteins golgin-97 and golgin-245 and its C-terminal to FAM21 subunit of the WASH complex, which regulates multiple endosomal trafficking routes. TBC1D23 is important for normal brain development, especially in axonal and dendritic growth. This entry represents the C-terminal domain that contains residues for specific FAM21 binding and for the cargo of endosome-derived carriers. It adopts a fold similar to the Pleckstrin homology (PH) domain. Mutations in this protein, and particularly in this domain, are linked with Pontocerebellar hypoplasia (PCH), suggesting that the TBC1D23 C-terminal domain is required for neuronal growth and brain development.


Pssm-ID: 437262  Cd Length: 225  Bit Score: 472.34  E-value: 3.52e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 218 SGYGHWIASTSGSRGSISSVDGESCNGSNDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 297
Cdd:pfam19430   1 NGYGHWIASTSGSRSSINSVDGESLNGSGDRGMKSLVNKMTVALKTKSVNVREKVISFIENTSTPVDRMSFNLPWPDRSC 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 298 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDIKHHFPCKEVKESGHMFPSHL 377
Cdd:pfam19430  81 TERHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDVKHHFPCKEVKESGHMFPSHL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958665589 378 LVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 442
Cdd:pfam19430 161 LVTATHMYCLREIASRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERYL 225
TBC1D23_C-like cd20788
C-terminal domain of TBC1 domain family member 23, and similar proteins; This family contains ...
 346-460 6.50e-63

C-terminal domain of TBC1 domain family member 23, and similar proteins; This family contains the C-terminal domain of Tre2-Bub2-Cdc16 (TBC) family 23 (TBC1D23), which adopts a Pleckstrin homology (PH) domain fold. It selectively binds to phosphoinositides, in particular, PtdIns(4)P, through one surface while it binds FAM21 via the opposite surface. TBC1D23, which is highly conserved in many eukaryotes but missing in plants and fungi, also possesses an N-terminal domain which is a catalytically inactive TBC domain. TBC1D23 encodes a protein functioning in endosome-to-Golgi trafficking in cells; it is a specificity determinant that links the vesicle to the target membrane. Homozygous mutations of TBC1D23 have been found in patients diagnosed with pontocerebellar hypoplasia (PCH), a group of neurological disorders that affect the brain development, particularly, the pons and cerebellum. Mutation of key residues of TBC1D23 (or FAM21) selectively disrupts the endosomal vesicular trafficking toward the Trans-Golgi Network. This C-terminal domain is missing in some PCH patients.


Pssm-ID: 412053  Cd Length: 115  Bit Score: 199.38  E-value: 6.50e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589 346 VNIQTWINKPDIKHHFPCKEVKESGHMFPSHLLVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKY 425
Cdd:cd20788     1 VNLSEWLKKPDVIASFECQEVKENGHMFPSYLLVTETHLYVLREIPDRKGYAKIVVRRPLSSIVKITSKKKHPELITFKY 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1958665589 426 GNSSASGIEILAIERYLIPNAGDATRAIKQQIMKV 460
Cdd:cd20788    81 GTSDDDESEITDMDRFYIPKAGDATKAIKQAILKL 115
Rhodanese pfam00581
Rhodanese-like domain; Rhodanese has an internal duplication. This Pfam represents a single ...
 107-148 1.38e-04

Rhodanese-like domain; Rhodanese has an internal duplication. This Pfam represents a single copy of this duplicated domain. The domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases.


Pssm-ID: 425764 [Multi-domain]  Cd Length: 92  Bit Score: 40.55  E-value: 1.38e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1958665589 107 VVDCRPAEQYNAGHLSTAFHLDSDLMLQNPSEFAQSVKSLLE 148
Cdd:pfam00581   8 LIDVRPPEEYAKGHIPGAVNVPLSSLSLPPLPLLELLEKLLE 49
DSP_MapKP cd01446
N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk ...
 95-206 1.62e-04

N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk Phosphatase. This domain is believed to determine substrate specificity by binding the substrate, such as ERK2, and activating the C-terminal catalytic domain by inducing a conformational change. This domain has homology to the Rhodanese Homology Domain.


Pssm-ID: 238723 [Multi-domain]  Cd Length: 132  Bit Score: 41.50  E-value: 1.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589  95 ANQLQGEGVRFFVVDCRPAEQYNAGHLSTAFHLD-SDLMLQNPSEFAQSVKSLL--EAQRQSIESGSIAggEHLCFMGSG 171
Cdd:cd01446     8 AALLREGGERLLLLDCRPFLEYSSSHIRGAVNVCcPTILRRRLQGGKILLQQLLscPEDRDRLRRGESL--AVVVYDESS 85

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1958665589 172 REE----EDMYMNMVLAHFLQKNKEY--VSIASGGFMALQQ 206
Cdd:cd01446    86 SDRerlrEDSTAESVLGKLLRKLQEGcsVYLLKGGFEQFSS 126
glpE PRK00162
thiosulfate sulfurtransferase GlpE;
94-132 5.90e-03

thiosulfate sulfurtransferase GlpE;


Pssm-ID: 178908 [Multi-domain]  Cd Length: 108  Bit Score: 36.54  E-value: 5.90e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1958665589  94 QANQL--QGEGVrffVVDCRPAEQYNAGHLSTAFHLDSDLM 132
Cdd:PRK00162   11 QAHQKlqEGGAV---LVDIRDPQSFAMGHAPGAFHLTNDSL 48
RHOD smart00450
Rhodanese Homology Domain; An alpha beta fold found duplicated in the Rhodanese protein. The ...
 104-207 6.40e-03

Rhodanese Homology Domain; An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.


Pssm-ID: 197731 [Multi-domain]  Cd Length: 100  Bit Score: 36.28  E-value: 6.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958665589  104 RFFVVDCRPAEQYNAGHLSTAFHLDSDLMLQNPSEFAQSVKSLLeaqrqsIESGSIAGGEHLCFMGSGreeeDMYMNMVL 183
Cdd:smart00450   4 KVVLLDVRSPEEYEGGHIPGAVNIPLSELLDRRGELDILEFEEL------LKRLGLDKDKPVVVYCRS----GNRSAKAA 73

                           90       100
                   ....*....|....*....|....
gi 1958665589  184 AHFLQKNKEYVSIASGGFMALQQH 207
Cdd:smart00450  74 WLLRELGFKNVYLLDGGYKEWSAA 97
 
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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