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Conserved domains on  [gi|1201295381|pdb|5MRG|A]
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Chain A, TAR DNA-binding protein 43

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TDP43_N pfam18694
Transactive response DNA-binding protein N-terminal domain; This domain can be found at the ...
 16-89 1.14e-47

Transactive response DNA-binding protein N-terminal domain; This domain can be found at the N-terminal region of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to play an important role in the aggregation of TDP-43 monomers and its loss of function affects the RNA metabolic levels. Secondary structure of the N-terminal domain consists of six beta-strands and it resembles axin 1.


:

Pssm-ID: 465833  Cd Length: 74  Bit Score: 146.94  E-value: 1.14e-47
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
5MRG_A         16 YIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNY 89
Cdd:pfam18694   1 YVQVSEDEGDEPIEIPLEDDGTLLLSTLQAQFPGACGLKYRNPETGCKRGVRLDDGKLHPPAGGWGNKVYYVVF 74
 
Name Accession Description Interval E-value
TDP43_N pfam18694
Transactive response DNA-binding protein N-terminal domain; This domain can be found at the ...
 16-89 1.14e-47

Transactive response DNA-binding protein N-terminal domain; This domain can be found at the N-terminal region of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to play an important role in the aggregation of TDP-43 monomers and its loss of function affects the RNA metabolic levels. Secondary structure of the N-terminal domain consists of six beta-strands and it resembles axin 1.


Pssm-ID: 465833  Cd Length: 74  Bit Score: 146.94  E-value: 1.14e-47
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
5MRG_A         16 YIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNY 89
Cdd:pfam18694   1 YVQVSEDEGDEPIEIPLEDDGTLLLSTLQAQFPGACGLKYRNPETGCKRGVRLDDGKLHPPAGGWGNKVYYVVF 74
NTD_TDP-43 cd19609
N-terminal domain of transactive response DNA-binding protein 43; Transactive response ...
 16-89 2.68e-46

N-terminal domain of transactive response DNA-binding protein 43; Transactive response DNA-binding protein of 43 kDa (TDP-43) is a nuclear DNA/RNA-binding protein involved in gene transcription and mRNA processing, transport, and translational regulation. It is vital to pre-mRNA and microRNA processing and regulates stress granule activity through the differential regulation of G3BP and TIA-1. It also forms aggregates implicated in amyotrophic lateral sclerosis. The N-terminal domain of TDP-43 is required for its physiological functions and pathological aggregation.


Pssm-ID: 410991  Cd Length: 74  Bit Score: 143.44  E-value: 2.68e-46
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
5MRG_A       16 YIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNY 89
Cdd:cd19609   1 YVRVAEDEGDEPIEVPLEEDGTLLLSTLQAQFPGATGLKYRNPETGRARGVRLVDGKLYPPEGGWGDRVYYVVF 74
 
Name Accession Description Interval E-value
TDP43_N pfam18694
Transactive response DNA-binding protein N-terminal domain; This domain can be found at the ...
 16-89 1.14e-47

Transactive response DNA-binding protein N-terminal domain; This domain can be found at the N-terminal region of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to play an important role in the aggregation of TDP-43 monomers and its loss of function affects the RNA metabolic levels. Secondary structure of the N-terminal domain consists of six beta-strands and it resembles axin 1.


Pssm-ID: 465833  Cd Length: 74  Bit Score: 146.94  E-value: 1.14e-47
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
5MRG_A         16 YIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNY 89
Cdd:pfam18694   1 YVQVSEDEGDEPIEIPLEDDGTLLLSTLQAQFPGACGLKYRNPETGCKRGVRLDDGKLHPPAGGWGNKVYYVVF 74
NTD_TDP-43 cd19609
N-terminal domain of transactive response DNA-binding protein 43; Transactive response ...
 16-89 2.68e-46

N-terminal domain of transactive response DNA-binding protein 43; Transactive response DNA-binding protein of 43 kDa (TDP-43) is a nuclear DNA/RNA-binding protein involved in gene transcription and mRNA processing, transport, and translational regulation. It is vital to pre-mRNA and microRNA processing and regulates stress granule activity through the differential regulation of G3BP and TIA-1. It also forms aggregates implicated in amyotrophic lateral sclerosis. The N-terminal domain of TDP-43 is required for its physiological functions and pathological aggregation.


Pssm-ID: 410991  Cd Length: 74  Bit Score: 143.44  E-value: 2.68e-46
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
5MRG_A       16 YIRVTEDENDEPIEIPSEDDGTVLLSTVTAQFPGACGLRYRNPVSQCMRGVRLVEGILHAPDAGWGNLVYVVNY 89
Cdd:cd19609   1 YVRVAEDEGDEPIEVPLEEDGTLLLSTLQAQFPGATGLKYRNPETGRARGVRLVDGKLYPPEGGWGDRVYYVVF 74
 
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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