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Conserved domains on  [gi|1958751093|ref|XP_038958405|]
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rap1 GTPase-GDP dissociation stimulator 1 isoform X5 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ARM smart00185
Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form ...
 168-211 8.24e-04

Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.


:

Pssm-ID: 214547 [Multi-domain]  Cd Length: 41  Bit Score: 37.02  E-value: 8.24e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1958751093  168 NDGNCIHMVDNGIVEKLMDLLDrhveDGNVTVQHAALSALRNLA 211
Cdd:smart00185   1 DDENKQAVVDAGGLPALVELLK----SEDEEVVKEAAWALSNLS 40
chemoreceptor_sensor super family cl00144
4-helix bundle ligand binding sensor domain of chemoreceptors such as Tar or Tsr; The ligand ...
 183-266 9.73e-03

4-helix bundle ligand binding sensor domain of chemoreceptors such as Tar or Tsr; The ligand binding sensor domain of chemoreceptors and related sensor histidine kinases forms homodimers and binds to ligands via the dimerization interface, a feature that appears to be conserved in this domain superfamily. This family includes ligand binding sensor domain of several chemoreceptors, such as Escherichia coli Tar, Tsr, NarQ, NarX, Pseudomonas aeruginosa KinB, Rhodopseudomonas palustris histidine kinase HK9 chemoreceptors, Comamonas testosteroni CNB-2 MCP2201 and Anaeromyxobacter dehalogenans histidine kinase Adeh_2942, among others.


The actual alignment was detected with superfamily member cd19411:

Pssm-ID: 444710 [Multi-domain]  Cd Length: 138  Bit Score: 36.46  E-value: 9.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958751093 183 KLMDLLDRHVEDGNVTVQHAALSALRNLAIPVVNKA-KMLSAGVTETVLKFLKSEMPPVQFKLLGTLRMLIDAQAEAAEQ 261
Cdd:cd19411    54 ELLKKLEKLITSPEGKALLAAIAEARAAYLAARDKVlELKKAGDREEARALLLGELRPAQAAYLAALDALVDYQEELMDA 133


                  ....*
gi 1958751093 262 LGKNA 266
Cdd:cd19411   134 AAAEA 138
 
Name Accession Description Interval E-value
ARM smart00185
Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form ...
 168-211 8.24e-04

Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.


Pssm-ID: 214547 [Multi-domain]  Cd Length: 41  Bit Score: 37.02  E-value: 8.24e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1958751093  168 NDGNCIHMVDNGIVEKLMDLLDrhveDGNVTVQHAALSALRNLA 211
Cdd:smart00185   1 DDENKQAVVDAGGLPALVELLK----SEDEEVVKEAAWALSNLS 40
Arm pfam00514
Armadillo/beta-catenin-like repeat; Approx. 40 amino acid repeat. Tandem repeats form ...
 168-211 2.42e-03

Armadillo/beta-catenin-like repeat; Approx. 40 amino acid repeat. Tandem repeats form super-helix of helices that is proposed to mediate interaction of beta-catenin with its ligands. CAUTION: This family does not contain all known armadillo repeats.


Pssm-ID: 425727 [Multi-domain]  Cd Length: 41  Bit Score: 35.51  E-value: 2.42e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1958751093 168 NDGNCIHMVDNGIVEKLMDLLDrhveDGNVTVQHAALSALRNLA 211
Cdd:pfam00514   1 SPENKQAVIEAGAVPPLVRLLS----SPDEEVQEEAAWALSNLA 40
MCP2201-like_sensor cd19411
ligand-binding sensor domain of Comamonas testosteroni CNB-2 MCP2201 and similar ...
 183-266 9.73e-03

ligand-binding sensor domain of Comamonas testosteroni CNB-2 MCP2201 and similar chemoreceptors; This family includes the ligand-binding sensor domain of Comamonas testosteroni transmembrane chemoreceptor CNB-2 MCP2201 and similar chemoreceptors. The C. testosteroni methyl-accepting chemotaxis protein MCP2201 triggers chemotaxis towards tricarboxylic acid cycle intermediates such as citric acid and aromatic compounds. While the apo-form ligand binding domain (LBD) forms a typical four-helix bundle homodimer, similar to other chemoreceptors in the superfamily such as Escherichia coli Tar and Tsr, the citrate-bound LBD reveals a four-helix bundle homotrimer. This type of oligomerization has never been observed in other bacterial chemoreceptor LBD. Site-directed mutations of key amino acid residues have demonstrated the physiological importance of the homotrimer for chemotaxis.


Pssm-ID: 438629 [Multi-domain]  Cd Length: 138  Bit Score: 36.46  E-value: 9.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958751093 183 KLMDLLDRHVEDGNVTVQHAALSALRNLAIPVVNKA-KMLSAGVTETVLKFLKSEMPPVQFKLLGTLRMLIDAQAEAAEQ 261
Cdd:cd19411    54 ELLKKLEKLITSPEGKALLAAIAEARAAYLAARDKVlELKKAGDREEARALLLGELRPAQAAYLAALDALVDYQEELMDA 133


                  ....*
gi 1958751093 262 LGKNA 266
Cdd:cd19411   134 AAAEA 138
 
Name Accession Description Interval E-value
ARM smart00185
Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form ...
 168-211 8.24e-04

Armadillo/beta-catenin-like repeats; Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.


Pssm-ID: 214547 [Multi-domain]  Cd Length: 41  Bit Score: 37.02  E-value: 8.24e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1958751093  168 NDGNCIHMVDNGIVEKLMDLLDrhveDGNVTVQHAALSALRNLA 211
Cdd:smart00185   1 DDENKQAVVDAGGLPALVELLK----SEDEEVVKEAAWALSNLS 40
Arm pfam00514
Armadillo/beta-catenin-like repeat; Approx. 40 amino acid repeat. Tandem repeats form ...
 168-211 2.42e-03

Armadillo/beta-catenin-like repeat; Approx. 40 amino acid repeat. Tandem repeats form super-helix of helices that is proposed to mediate interaction of beta-catenin with its ligands. CAUTION: This family does not contain all known armadillo repeats.


Pssm-ID: 425727 [Multi-domain]  Cd Length: 41  Bit Score: 35.51  E-value: 2.42e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1958751093 168 NDGNCIHMVDNGIVEKLMDLLDrhveDGNVTVQHAALSALRNLA 211
Cdd:pfam00514   1 SPENKQAVIEAGAVPPLVRLLS----SPDEEVQEEAAWALSNLA 40
MCP2201-like_sensor cd19411
ligand-binding sensor domain of Comamonas testosteroni CNB-2 MCP2201 and similar ...
 183-266 9.73e-03

ligand-binding sensor domain of Comamonas testosteroni CNB-2 MCP2201 and similar chemoreceptors; This family includes the ligand-binding sensor domain of Comamonas testosteroni transmembrane chemoreceptor CNB-2 MCP2201 and similar chemoreceptors. The C. testosteroni methyl-accepting chemotaxis protein MCP2201 triggers chemotaxis towards tricarboxylic acid cycle intermediates such as citric acid and aromatic compounds. While the apo-form ligand binding domain (LBD) forms a typical four-helix bundle homodimer, similar to other chemoreceptors in the superfamily such as Escherichia coli Tar and Tsr, the citrate-bound LBD reveals a four-helix bundle homotrimer. This type of oligomerization has never been observed in other bacterial chemoreceptor LBD. Site-directed mutations of key amino acid residues have demonstrated the physiological importance of the homotrimer for chemotaxis.


Pssm-ID: 438629 [Multi-domain]  Cd Length: 138  Bit Score: 36.46  E-value: 9.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958751093 183 KLMDLLDRHVEDGNVTVQHAALSALRNLAIPVVNKA-KMLSAGVTETVLKFLKSEMPPVQFKLLGTLRMLIDAQAEAAEQ 261
Cdd:cd19411    54 ELLKKLEKLITSPEGKALLAAIAEARAAYLAARDKVlELKKAGDREEARALLLGELRPAQAAYLAALDALVDYQEELMDA 133


                  ....*
gi 1958751093 262 LGKNA 266
Cdd:cd19411   134 AAAEA 138
 
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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