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Conserved domains on  [gi|1720674753|gb|TWW78406|]
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Homeobox protein OTX1 B [Takifugu flavidus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bMERB_dom pfam12130
Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact ...
 46-135 1.90e-44

Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact specifically with GTP-bound Rab proteins and mediate their versatile roles in membrane trafficking, including budding of vesicles from a donor membrane, directed transport through the cell and finally tethering and fusion with a target membrane. The 'bivalent Mical/EHBP Rab binding' (bMERB) domain is a Rab effector domain that is present in proteins of the Mical and EHBP families, both known to act in endosomal trafficking. The bMERB domain displays a preference for Rab8 family proteins (Rab8, 10, 13 and 15) and at least some of the bMERB domains contain two separate binding sites for Rab-proteins, allowing Micals and EHBPs to bind two Rabs simultaneously. The strong similarity between the two binding sites within one bMRB domain strongly suggests an evolutionarily development via duplication of a common ancestor supersecondary structure element. The bMERB domain has a completely alpha-helical fold consisting of a central helix and N- and C-terminal helices folding back on this central helix.


:

Pssm-ID: 463467 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 1.90e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720674753  46 NNKEEEEAMMQEWFVLVNKKNALIRRQNQLSLLEKEHDLERRFELLNRELRAMLAIEDWQKTEAQKRREQLLLDELVILV 125
Cdd:pfam12130  28 SGDEEEEQLLQEWFKLVNEKNALVRRESELMYLAKEQDLEERQARLEQELRELMSKPDWLKTEEDKQREEELLEELVEIV 107

                          90
                  ....*....|
gi 1720674753 126 NKRDALVRDL 135
Cdd:pfam12130 108 EQRDALVDSL 117
TF_Otx pfam03529
Otx1 transcription factor;
376-452 8.08e-42

Otx1 transcription factor;


:

Pssm-ID: 427350  Cd Length: 91  Bit Score: 144.67  E-value: 8.08e-42
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720674753 376 PPSNASCMQRSMSGsaAAATSYPMSYNQTPGYGQGYPAPSSSYFSGVDCSSYLAPMHSH-HHPHQLSPMTASSMSGHP 452
Cdd:pfam03529  13 APSSASCMQRSVSS--TASASYPMSYGQASAYSQGYPAGSSSYFGGVDCGSYLSPMHSQlHHPHQLSPMTASSMGGHL 88
Homeodomain pfam00046
Homeodomain;
226-282 9.20e-25

Homeodomain;


:

Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 96.80  E-value: 9.20e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720674753 226 RRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQ 282
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
 
Name Accession Description Interval E-value
bMERB_dom pfam12130
Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact ...
 46-135 1.90e-44

Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact specifically with GTP-bound Rab proteins and mediate their versatile roles in membrane trafficking, including budding of vesicles from a donor membrane, directed transport through the cell and finally tethering and fusion with a target membrane. The 'bivalent Mical/EHBP Rab binding' (bMERB) domain is a Rab effector domain that is present in proteins of the Mical and EHBP families, both known to act in endosomal trafficking. The bMERB domain displays a preference for Rab8 family proteins (Rab8, 10, 13 and 15) and at least some of the bMERB domains contain two separate binding sites for Rab-proteins, allowing Micals and EHBPs to bind two Rabs simultaneously. The strong similarity between the two binding sites within one bMRB domain strongly suggests an evolutionarily development via duplication of a common ancestor supersecondary structure element. The bMERB domain has a completely alpha-helical fold consisting of a central helix and N- and C-terminal helices folding back on this central helix.


Pssm-ID: 463467 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 1.90e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720674753  46 NNKEEEEAMMQEWFVLVNKKNALIRRQNQLSLLEKEHDLERRFELLNRELRAMLAIEDWQKTEAQKRREQLLLDELVILV 125
Cdd:pfam12130  28 SGDEEEEQLLQEWFKLVNEKNALVRRESELMYLAKEQDLEERQARLEQELRELMSKPDWLKTEEDKQREEELLEELVEIV 107

                          90
                  ....*....|
gi 1720674753 126 NKRDALVRDL 135
Cdd:pfam12130 108 EQRDALVDSL 117
TF_Otx pfam03529
Otx1 transcription factor;
376-452 8.08e-42

Otx1 transcription factor;


Pssm-ID: 427350  Cd Length: 91  Bit Score: 144.67  E-value: 8.08e-42
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720674753 376 PPSNASCMQRSMSGsaAAATSYPMSYNQTPGYGQGYPAPSSSYFSGVDCSSYLAPMHSH-HHPHQLSPMTASSMSGHP 452
Cdd:pfam03529  13 APSSASCMQRSVSS--TASASYPMSYGQASAYSQGYPAGSSSYFGGVDCGSYLSPMHSQlHHPHQLSPMTASSMGGHL 88
Homeodomain pfam00046
Homeodomain;
226-282 9.20e-25

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 96.80  E-value: 9.20e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720674753 226 RRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQ 282
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 226-284 8.64e-22

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 88.45  E-value: 8.64e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720674753 226 RRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQ 284
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 225-281 1.71e-21

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 87.69  E-value: 1.71e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720674753  225 QRRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 281
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
223-313 7.87e-15

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 72.08  E-value: 7.87e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720674753 223 RKQRRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQSGssaKARPPKKKSSPA 302
Cdd:COG5576    49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGK---VEQRPGEEEADL 125

                          90
                  ....*....|.
gi 1720674753 303 REsTGSESSGQ 313
Cdd:COG5576   126 AK-IGSLSTGQ 135
 
Name Accession Description Interval E-value
bMERB_dom pfam12130
Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact ...
 46-135 1.90e-44

Bivalent Mical/EHBP Rab binding domain; A variety of different effector proteins interact specifically with GTP-bound Rab proteins and mediate their versatile roles in membrane trafficking, including budding of vesicles from a donor membrane, directed transport through the cell and finally tethering and fusion with a target membrane. The 'bivalent Mical/EHBP Rab binding' (bMERB) domain is a Rab effector domain that is present in proteins of the Mical and EHBP families, both known to act in endosomal trafficking. The bMERB domain displays a preference for Rab8 family proteins (Rab8, 10, 13 and 15) and at least some of the bMERB domains contain two separate binding sites for Rab-proteins, allowing Micals and EHBPs to bind two Rabs simultaneously. The strong similarity between the two binding sites within one bMRB domain strongly suggests an evolutionarily development via duplication of a common ancestor supersecondary structure element. The bMERB domain has a completely alpha-helical fold consisting of a central helix and N- and C-terminal helices folding back on this central helix.


Pssm-ID: 463467 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 1.90e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720674753  46 NNKEEEEAMMQEWFVLVNKKNALIRRQNQLSLLEKEHDLERRFELLNRELRAMLAIEDWQKTEAQKRREQLLLDELVILV 125
Cdd:pfam12130  28 SGDEEEEQLLQEWFKLVNEKNALVRRESELMYLAKEQDLEERQARLEQELRELMSKPDWLKTEEDKQREEELLEELVEIV 107

                          90
                  ....*....|
gi 1720674753 126 NKRDALVRDL 135
Cdd:pfam12130 108 EQRDALVDSL 117
TF_Otx pfam03529
Otx1 transcription factor;
376-452 8.08e-42

Otx1 transcription factor;


Pssm-ID: 427350  Cd Length: 91  Bit Score: 144.67  E-value: 8.08e-42
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1720674753 376 PPSNASCMQRSMSGsaAAATSYPMSYNQTPGYGQGYPAPSSSYFSGVDCSSYLAPMHSH-HHPHQLSPMTASSMSGHP 452
Cdd:pfam03529  13 APSSASCMQRSVSS--TASASYPMSYGQASAYSQGYPAGSSSYFGGVDCGSYLSPMHSQlHHPHQLSPMTASSMGGHL 88
Homeodomain pfam00046
Homeodomain;
226-282 9.20e-25

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 96.80  E-value: 9.20e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720674753 226 RRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQ 282
Cdd:pfam00046   1 RRKRTTFTPEQLEELEKEFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 226-284 8.64e-22

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 88.45  E-value: 8.64e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1720674753 226 RRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQ 284
Cdd:cd00086     1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 225-281 1.71e-21

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 87.69  E-value: 1.71e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1720674753  225 QRRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 281
Cdd:smart00389   1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
223-313 7.87e-15

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 72.08  E-value: 7.87e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720674753 223 RKQRRERTTFTRSQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQSGssaKARPPKKKSSPA 302
Cdd:COG5576    49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGK---VEQRPGEEEADL 125

                          90
                  ....*....|.
gi 1720674753 303 REsTGSESSGQ 313
Cdd:COG5576   126 AK-IGSLSTGQ 135
 
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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