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Conserved domains on  [gi|1958659783|ref|XP_038942334|]
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reticulophagy regulator 3 isoform X1 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Arl6IP1_RETR3-like super family cl41772
ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and ...
 1-51 2.41e-27

ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and similar proteins; This family contains ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1) and the N-terminal reticulon-homology domain (RHD) of Reticulophagy regulators 1-3. Arl6IP1 is an endoplasmic reticulum (ER) protein that has an important role in cell conduction and material transport. Arl6IP1, a tetraspan membrane protein, is an anti-apoptotic protein specific to multicellular organisms, and is a potential player in shaping the ER tubules in mammalian cells. In Drosophila, knockdown of the Arl6IP1 gene leads to progressive motor deficit. An Arl6IP1 variant has also been associated with hereditary spastic paraplegia (HSP), motor and sensory polyneuropathy, and acromutilation. Reticulophagy regulator 1 (RETREG1/FAM134B) is an endoplasmic reticulum (ER)-anchored autophagy receptor that regulates the size and shape of the ER. It regulates turnover of the ER by selective phagocytosis, mediating ER delivery into lysosomes through sequestration into autophagosomes. It promotes membrane remodeling and ER scission through its membrane bending activity, and targets the fragments into autophagosomes by interacting with ATG8 family modifier proteins such as MAP1LC3A, MAP1LC3B, GABARAP, GABARAPL1 and GABARAPL2. RETREG2/FAM134A and RETREG3/FAM134C has been shown to interact with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. Arl6IP1 shows some sequence similarity to the RHD of reticulophagy regulators, which may function in inducing membrane curvature.


The actual alignment was detected with superfamily member cd22562:

Pssm-ID: 425403  Cd Length: 192  Bit Score: 104.83  E-value: 2.41e-27
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1958659783   1 MLGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVRG 51
Cdd:cd22562   142 VLGRYIPGLLLSYLLLLFVLLWPLAVYHRLGQRIYVKLEPALQRLDFSVRG 192
 
Name Accession Description Interval E-value
RETR3_RHD cd22562
N-terminal reticulon-homology domain of Reticulophagy regulator 3; Reticulophagy regulator 3 ...
 1-51 2.41e-27

N-terminal reticulon-homology domain of Reticulophagy regulator 3; Reticulophagy regulator 3 (RETR3 or RETREG3), also called FAM134C (family with sequence similarity 134, member C), mediates NRF1-enhanced neurite outgrowth. It interacts with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. RETREG3/FAM134C contains an N-terminal reticulon-homology domain (RHD) that shows sequence similarity to ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1), an endoplasmic reticulum protein that has an important role in cell conduction and material transport. The RHD may function in inducing membrane curvature.


Pssm-ID: 411701  Cd Length: 192  Bit Score: 104.83  E-value: 2.41e-27
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1958659783   1 MLGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVRG 51
Cdd:cd22562   142 VLGRYIPGLLLSYLLLLFVLLWPLAVYHRLGQRIYVKLEPALQRLDFSVRG 192
 
Name Accession Description Interval E-value
RETR3_RHD cd22562
N-terminal reticulon-homology domain of Reticulophagy regulator 3; Reticulophagy regulator 3 ...
 1-51 2.41e-27

N-terminal reticulon-homology domain of Reticulophagy regulator 3; Reticulophagy regulator 3 (RETR3 or RETREG3), also called FAM134C (family with sequence similarity 134, member C), mediates NRF1-enhanced neurite outgrowth. It interacts with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. RETREG3/FAM134C contains an N-terminal reticulon-homology domain (RHD) that shows sequence similarity to ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1), an endoplasmic reticulum protein that has an important role in cell conduction and material transport. The RHD may function in inducing membrane curvature.


Pssm-ID: 411701  Cd Length: 192  Bit Score: 104.83  E-value: 2.41e-27
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1958659783   1 MLGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVRG 51
Cdd:cd22562   142 VLGRYIPGLLLSYLLLLFVLLWPLAVYHRLGQRIYVKLEPALQRLDFSVRG 192
RETR_RHD cd22558
N-terminal reticulon-homology domain of Reticulophagy regulators and similar proteins; This ...
 2-50 5.10e-18

N-terminal reticulon-homology domain of Reticulophagy regulators and similar proteins; This subfamily includes Reticulophagy regulators 1-3. Reticulophagy regulator 1 (RETREG1/FAM134B) is an endoplasmic reticulum (ER)-anchored autophagy receptor that regulates the size and shape of the ER. It regulates turnover of the ER by selective phagocytosis, mediating ER delivery into lysosomes through sequestration into autophagosomes. It promotes membrane remodeling and ER scission through its membrane bending activity, and targets the fragments into autophagosomes by interacting with ATG8 family modifier proteins such as MAP1LC3A, MAP1LC3B, GABARAP, GABARAPL1 and GABARAPL2. RETREG2/FAM134A and RETREG3/FAM134C has been shown to interact with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. Members of this subfamily contain an N-terminal reticulon-homology domain (RHD) that shows sequence similarity to ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1), an ER protein that has an important role in cell conduction and material transport. The RHD may function in inducing membrane curvature.


Pssm-ID: 411697  Cd Length: 192  Bit Score: 80.04  E-value: 5.10e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1958659783   2 LGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVR 50
Cdd:cd22558   143 IGHYVPGVLLSYIILLSLLLWPLVVYHRVPQKIYTKLEPVLMQLEYSMK 191
Arl6IP1_RETR3-like cd21102
ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and ...
 2-48 2.21e-16

ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and similar proteins; This family contains ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1) and the N-terminal reticulon-homology domain (RHD) of Reticulophagy regulators 1-3. Arl6IP1 is an endoplasmic reticulum (ER) protein that has an important role in cell conduction and material transport. Arl6IP1, a tetraspan membrane protein, is an anti-apoptotic protein specific to multicellular organisms, and is a potential player in shaping the ER tubules in mammalian cells. In Drosophila, knockdown of the Arl6IP1 gene leads to progressive motor deficit. An Arl6IP1 variant has also been associated with hereditary spastic paraplegia (HSP), motor and sensory polyneuropathy, and acromutilation. Reticulophagy regulator 1 (RETREG1/FAM134B) is an endoplasmic reticulum (ER)-anchored autophagy receptor that regulates the size and shape of the ER. It regulates turnover of the ER by selective phagocytosis, mediating ER delivery into lysosomes through sequestration into autophagosomes. It promotes membrane remodeling and ER scission through its membrane bending activity, and targets the fragments into autophagosomes by interacting with ATG8 family modifier proteins such as MAP1LC3A, MAP1LC3B, GABARAP, GABARAPL1 and GABARAPL2. RETREG2/FAM134A and RETREG3/FAM134C has been shown to interact with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. Arl6IP1 shows some sequence similarity to the RHD of reticulophagy regulators, which may function in inducing membrane curvature.


Pssm-ID: 411696  Cd Length: 178  Bit Score: 75.17  E-value: 2.21e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1958659783   2 LGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAY---VRLKPALQRLDFS 48
Cdd:cd21102   129 LGQYIPGVLLSYLILTSLLLWPLLNYHGLIDKLYgmaKRLHPKLLKLDES 178
RETR2_RHD cd22561
N-terminal reticulon-homology domain of Reticulophagy regulator 2; Reticulophagy regulator 2 ...
 1-51 2.98e-13

N-terminal reticulon-homology domain of Reticulophagy regulator 2; Reticulophagy regulator 2 (RETR2 or RETREG2), also called FAM134A (family with sequence similarity 134, member A), C2orf17, or MAG2, interacts with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, GABARAP, and GABARAPL1. RETREG2/FAM134A contains an N-terminal reticulon-homology domain (RHD) that shows sequence similarity to ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1), an endoplasmic reticulum protein that has an important role in cell conduction and material transport. The RHD may function in inducing membrane curvature.


Pssm-ID: 411700  Cd Length: 199  Bit Score: 67.12  E-value: 2.98e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1958659783   1 MLGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVRG 51
Cdd:cd22561   149 VLGHYVPGIMISYIVLLSVLLWPLVVYHELIQRMYTRLEPVLMKLDYSMKG 199
RETR1_RHD cd22560
N-terminal reticulon-homology domain of Reticulophagy regulator 1; Reticulophagy regulator 1 ...
 1-50 6.28e-11

N-terminal reticulon-homology domain of Reticulophagy regulator 1; Reticulophagy regulator 1 (RETR1 or RETREG1), also called reticulophagy receptor 1 or FAM134B (family with sequence similarity 134, member B), is an endoplasmic reticulum (ER)-anchored autophagy receptor that regulates the size and shape of the ER. It regulates turnover of the ER by selective phagocytosis, mediating ER delivery into lysosomes through sequestration into autophagosomes. It promotes membrane remodeling and ER scission through its membrane bending activity, and targets the fragments into autophagosomes by interacting with ATG8 family modifier proteins such as MAP1LC3A, MAP1LC3B, GABARAP, GABARAPL1 and GABARAPL2. Loss of function of FAM134B is associated with diseases and cancer, including hereditary sensory and autonomic neuropathy type IIB (HSAN IIB), colorectal adenocarcinoma, and oesophageal squamous cell carcinoma, and other progressive neuronal degenerative diseases. FAM134B is also implicated in the suppression of viral replication during Ebola, Dengue, Zika, and West Nile viral infections. RETREG1/FAM134B contains an N-terminal reticulon-homology domain (RHD) that shows sequence similarity to ADP-ribosylation factor-like 6 binding factor 1 (Arl6IP1 or Arl6ip-1), an ER protein that has an important role in cell conduction and material transport. The RHD may function in inducing membrane curvature.


Pssm-ID: 411699  Cd Length: 198  Bit Score: 60.54  E-value: 6.28e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1958659783   1 MLGRYVPGLLLSYLMLVIIIMWPLAVYHRLWDRAYVRLKPALQRLDFSVR 50
Cdd:cd22560   148 ILGSYIPGVVLSYLLLLCAFLCPLFKCNEFGQKVYSKVKSVLQKLDFGIG 197
 
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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