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Conserved domains on  [gi|13899219|ref|NP_113600|]
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gamma-aminobutyric acid receptor-associated protein-like 1 isoform 2 [Homo sapiens]

Protein Classification

ubiquitin family protein( domain architecture ID 13006414)

ubiquitin family protein belongs to an diverse class of protein modifier and gene expression regulatory proteins that participate in a number of cellular processes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ubl_ATG8_GABARAP_like cd16127
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 5-111 5.34e-72

ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein (GABARAP) and similar proteins; sub-family of the autophagy-related 8 (ATG8) protein family; GABARAP (also termed GABA(A) receptor-associated protein, ATG8A, or MM46) has been implicated in intracellular protein trafficking. It is a cytosolic protein, localized to transport vesicles, the Golgi network and the endoplasmic reticulum. It interacts with the intracellular domain of the gamma2 subunit of GABA(A) receptors, and thus, functions as a trafficking modulator implicated in the intracellular trafficking of GABA(A) receptor. GABARAP also acts as a Ubl modifier belonging to the ATG8 (autophagy-related 8) protein family which is essential for autophagosome biogenesis and maturation. GABARAP recruits phosphatidylinositol 4-kinase II alpha (PI4KIIalpha) as a specific downstream effector, and regulates phosphatidylinositol 4-phosphate (PI4P)-dependent autophagosome lysosome fusion. This sub-family also includes GABARAPL1 (also termed GABA(A) receptor-associated protein-like, or GEC1), GABARAPL2/GATE-16, and GABARAPL3. GABARAPL1 has been involved in the intracellular transport of receptors via interactions with tubulin and GABA(A) or kappa opioid receptors. GABARAPL1 is also a Ubl modifier that functions as a mediator involved in androgen-regulated autophagy process. It is transcriptionally modulated by androgen receptor (AR) and has a repressive role in autophagy. In addition, GABARAPL1 is required for increased membrane expression of epidermal growth factor receptor (EGFR) during hypoxia, suggesting a possible role in the trafficking of these membrane proteins. GABARAPL1 may also play a key role in several important biological processes such as cancer or neurodegenerative diseases. Low expression of GABARAPL1 is associated with poor prognosis of patients with hepatocellular carcinoma.


:

Pssm-ID: 340544  Cd Length: 107  Bit Score: 209.65  E-value: 5.34e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 84
Cdd:cd16127   1 YKEDHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARVADLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVI 80

                        90       100
                ....*....|....*....|....*..
gi 13899219  85 PPTSATMGQLYEDNHEEDYFLYVAYSD 111
Cdd:cd16127  81 PPTSATMGQLYQEHHEEDFFLYIAYSD 107
 
Name Accession Description Interval E-value
Ubl_ATG8_GABARAP_like cd16127
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 5-111 5.34e-72

ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein (GABARAP) and similar proteins; sub-family of the autophagy-related 8 (ATG8) protein family; GABARAP (also termed GABA(A) receptor-associated protein, ATG8A, or MM46) has been implicated in intracellular protein trafficking. It is a cytosolic protein, localized to transport vesicles, the Golgi network and the endoplasmic reticulum. It interacts with the intracellular domain of the gamma2 subunit of GABA(A) receptors, and thus, functions as a trafficking modulator implicated in the intracellular trafficking of GABA(A) receptor. GABARAP also acts as a Ubl modifier belonging to the ATG8 (autophagy-related 8) protein family which is essential for autophagosome biogenesis and maturation. GABARAP recruits phosphatidylinositol 4-kinase II alpha (PI4KIIalpha) as a specific downstream effector, and regulates phosphatidylinositol 4-phosphate (PI4P)-dependent autophagosome lysosome fusion. This sub-family also includes GABARAPL1 (also termed GABA(A) receptor-associated protein-like, or GEC1), GABARAPL2/GATE-16, and GABARAPL3. GABARAPL1 has been involved in the intracellular transport of receptors via interactions with tubulin and GABA(A) or kappa opioid receptors. GABARAPL1 is also a Ubl modifier that functions as a mediator involved in androgen-regulated autophagy process. It is transcriptionally modulated by androgen receptor (AR) and has a repressive role in autophagy. In addition, GABARAPL1 is required for increased membrane expression of epidermal growth factor receptor (EGFR) during hypoxia, suggesting a possible role in the trafficking of these membrane proteins. GABARAPL1 may also play a key role in several important biological processes such as cancer or neurodegenerative diseases. Low expression of GABARAPL1 is associated with poor prognosis of patients with hepatocellular carcinoma.


Pssm-ID: 340544  Cd Length: 107  Bit Score: 209.65  E-value: 5.34e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 84
Cdd:cd16127   1 YKEDHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARVADLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVI 80

                        90       100
                ....*....|....*....|....*..
gi 13899219  85 PPTSATMGQLYEDNHEEDYFLYVAYSD 111
Cdd:cd16127  81 PPTSATMGQLYQEHHEEDFFLYIAYSD 107
ATG8 pfam02991
Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a ...
 14-116 1.56e-59

Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity. Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N-terminus and the C-terminus of Atg19.


Pssm-ID: 281049  Cd Length: 104  Bit Score: 177.93  E-value: 1.56e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219    14 RKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQ 93
Cdd:pfam02991   2 RQKESEKIREKYPDRIPVIIEKASGSDLPDIDKKKYLVPADLTVGQFIYIIRKRIQLRPEKAIFLFVNNTLPPTSATMSA 81

                          90       100
                  ....*....|....*....|...
gi 13899219    94 LYEDNHEEDYFLYVAYSDESVYG 116
Cdd:pfam02991  82 LYEEEKDEDGFLYMVYSGENTFG 104
PTZ00380 PTZ00380
microtubule-associated protein (MAP); Provisional
 5-116 6.65e-10

microtubule-associated protein (MAP); Provisional


Pssm-ID: 173572  Cd Length: 121  Bit Score: 52.42  E-value: 6.65e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219    5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARvpdlDKRKYL-VPSDLTVGQFYFLIRKRIHLRPEDaLFFFVNNT 83
Cdd:PTZ00380   4 YHSSNPVEARRAECARLQAKYPGHVAVVVEAAEKAG----SKVHFLaLPRDATVAELEAAVRQALGTSAKK-VTLAIEGS 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 13899219   84 IPPTSATMGQLYEDNHEEDYFLYVAYSDESVYG 116
Cdd:PTZ00380  79 TPAVTATVGDIADACKRDDGFLYVSVRTEQAMG 111
 
Name Accession Description Interval E-value
Ubl_ATG8_GABARAP_like cd16127
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 5-111 5.34e-72

ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein (GABARAP) and similar proteins; sub-family of the autophagy-related 8 (ATG8) protein family; GABARAP (also termed GABA(A) receptor-associated protein, ATG8A, or MM46) has been implicated in intracellular protein trafficking. It is a cytosolic protein, localized to transport vesicles, the Golgi network and the endoplasmic reticulum. It interacts with the intracellular domain of the gamma2 subunit of GABA(A) receptors, and thus, functions as a trafficking modulator implicated in the intracellular trafficking of GABA(A) receptor. GABARAP also acts as a Ubl modifier belonging to the ATG8 (autophagy-related 8) protein family which is essential for autophagosome biogenesis and maturation. GABARAP recruits phosphatidylinositol 4-kinase II alpha (PI4KIIalpha) as a specific downstream effector, and regulates phosphatidylinositol 4-phosphate (PI4P)-dependent autophagosome lysosome fusion. This sub-family also includes GABARAPL1 (also termed GABA(A) receptor-associated protein-like, or GEC1), GABARAPL2/GATE-16, and GABARAPL3. GABARAPL1 has been involved in the intracellular transport of receptors via interactions with tubulin and GABA(A) or kappa opioid receptors. GABARAPL1 is also a Ubl modifier that functions as a mediator involved in androgen-regulated autophagy process. It is transcriptionally modulated by androgen receptor (AR) and has a repressive role in autophagy. In addition, GABARAPL1 is required for increased membrane expression of epidermal growth factor receptor (EGFR) during hypoxia, suggesting a possible role in the trafficking of these membrane proteins. GABARAPL1 may also play a key role in several important biological processes such as cancer or neurodegenerative diseases. Low expression of GABARAPL1 is associated with poor prognosis of patients with hepatocellular carcinoma.


Pssm-ID: 340544  Cd Length: 107  Bit Score: 209.65  E-value: 5.34e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 84
Cdd:cd16127   1 YKEDHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARVADLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVI 80

                        90       100
                ....*....|....*....|....*..
gi 13899219  85 PPTSATMGQLYEDNHEEDYFLYVAYSD 111
Cdd:cd16127  81 PPTSATMGQLYQEHHEEDFFLYIAYSD 107
Ubl_ATG8_GABARAPL1_like cd17233
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein-like ...
 5-111 3.95e-69

ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein-like 1 (GABARAPL1) and similar proteins; GABARAPL1, also termed GEC1, or GABA(A) receptor-associated protein-like, belongs to the small family of GABARAP proteins which includes GABARAP, GABARAPL1, GABARAPL2/GATE-16, and GABARAPL3. GABARAPL1 has been involved in the intracellular transport of receptors via interactions with tubulin and GABA(A) or kappa opioid receptors. It is also a Ubl modifier that functions as a mediator involved in androgen-regulated autophagy process. It is transcriptionally modulated by androgen receptor (AR) and has a repressive role in autophagy. In addition, GABARAPL1 is required for increased membrane expression of epidermal growth factor receptor (EGFR) during hypoxia, suggesting a possible role in the trafficking of these membrane proteins. GABARAPL1 may also play a key role in several important biological processes such as cancer or neurodegenerative diseases. Low expression of GABARAPL1 is associated with poor prognosis of patients with hepatocellular carcinoma. This family also includes GABARAPL3, a paralog of GABARAPL1.


Pssm-ID: 340753  Cd Length: 107  Bit Score: 202.60  E-value: 3.95e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 84
Cdd:cd17233   1 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 80

                        90       100
                ....*....|....*....|....*..
gi 13899219  85 PPTSATMGQLYEDNHEEDYFLYVAYSD 111
Cdd:cd17233  81 PPTSATMGQLYEDNHEEDYFLYVAYSD 107
Ubl_ATG8_GABARAP cd17232
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 2-116 2.73e-68

ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein (GABARAP); GABARAP (also termed GABA(A) receptor-associated protein, ATG8A, or MM46) has been implicated in intracellular protein trafficking. It is a cytosolic protein that is localized to transport vesicles, the Golgi network and the endoplasmic reticulum. It interacts with the intracellular domain of the gamma2 subunit of GABA(A) receptors, and thus functions as a trafficking modulator implicated in the intracellular trafficking of GABA(A) receptor. GABARAP also acts as a Ubl modifier belonging to the ATG8 (autophagy-related 8) protein family, which is essential for autophagosome biogenesis and maturation. GABARAP recruits phosphatidylinositol 4-kinase II alpha (PI4KIIalpha) as a specific downstream effector, and regulates phosphatidylinositol 4-phosphate (PI4P)-dependent autophagosome lysosome fusion.


Pssm-ID: 340752  Cd Length: 115  Bit Score: 200.60  E-value: 2.73e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   2 KFQYKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVN 81
Cdd:cd17232   1 KFVYKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLIRKRIHLRAEDALFFFVN 80

                        90       100       110
                ....*....|....*....|....*....|....*
gi 13899219  82 NTIPPTSATMGQLYEDNHEEDYFLYVAYSDESVYG 116
Cdd:cd17232  81 NVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 115
ATG8 pfam02991
Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a ...
 14-116 1.56e-59

Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity. Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N-terminus and the C-terminus of Atg19.


Pssm-ID: 281049  Cd Length: 104  Bit Score: 177.93  E-value: 1.56e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219    14 RKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQ 93
Cdd:pfam02991   2 RQKESEKIREKYPDRIPVIIEKASGSDLPDIDKKKYLVPADLTVGQFIYIIRKRIQLRPEKAIFLFVNNTLPPTSATMSA 81

                          90       100
                  ....*....|....*....|...
gi 13899219    94 LYEDNHEEDYFLYVAYSDESVYG 116
Cdd:pfam02991  82 LYEEEKDEDGFLYMVYSGENTFG 104
Ubl_ATG8_GABARAPL2 cd17163
ubiquitin-like (Ubl) domain found in GABA type A receptor associated protein like 2 (GABARAPL2, ...
 5-116 5.28e-57

ubiquitin-like (Ubl) domain found in GABA type A receptor associated protein like 2 (GABARAPL2, also known as GATE16); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. GABARAPL2 (GABA type A receptor associated protein like 2), also known as GATE-16 (golgi-associated adenosine triphosphatase enhancer of 16 kDa), has a ubiquitin-like (Ubl) domain and is a sub-family of the autophagy-related 8 (ATG8) protein family. GABARAPL2 participates to the autophagosome maturation, and seems to be involved in constitutive transport under normal conditions and in autophagic processes during stress. GABARAPL2 is characterized as a membrane transport modulator that controls intra-Golgi transport by interacting with NSF and Golgi v-SNARE GOS-28.


Pssm-ID: 340683  Cd Length: 112  Bit Score: 171.83  E-value: 5.28e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI 84
Cdd:cd17163   1 FKEEHSLEQRCAESAKIRAKYPDRIPVIVEKVPKSQIPDIDKRKFLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVGKVL 80

                        90       100       110
                ....*....|....*....|....*....|..
gi 13899219  85 PPTSATMGQLYEDNHEEDYFLYVAYSDESVYG 116
Cdd:cd17163  81 PQSSATMGQLYEEHKDEDGFLYVAYSGENTFG 112
Ubl_ATG8 cd16128
ubiquitin-like (Ubl) domain found in Saccharomyces cerevisiae Atg8p and related proteins; ...
 11-113 5.57e-49

ubiquitin-like (Ubl) domain found in Saccharomyces cerevisiae Atg8p and related proteins; sub-family of the autophagy-related 8 (ATG8) family; The ATG8 family of proteins constitutes a single member in Saccharomyces cerevisiae, Atg8p, and multiple homologs in higher eukaryotes. These proteins are multifunctional ubiquitin-like (Ubl) key regulators of autophagy. ATG8 is characterized by a C-terminal ubiquitin-like (Ubl) domain with a short N-terminal extension. The covalent attachment of ATG8 to phosphatidylethanolamine (PtdEth) at the autophagosomal membrane places it at a crucial juncture during autophagosome formation. ATG Ubl proteins such as Saccharomyces cerevisiae Atg8p undergo a unique Ubl conjugation, a process essential for autophagosome formation.


Pssm-ID: 340545  Cd Length: 103  Bit Score: 151.46  E-value: 5.57e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219  11 FEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSAT 90
Cdd:cd16128   1 FEKRKAEAERIRDKYPDRIPVICEKAEKSDIPDIDKKKYLVPADLTVGQFVYVIRKRIKLSPEKAIFIFVNNVLPPTAAL 80

                        90       100
                ....*....|....*....|...
gi 13899219  91 MGQLYEDNHEEDYFLYVAYSDES 113
Cdd:cd16128  81 MSAIYEEHKDEDGFLYVTYSGEN 103
Ubl_ATG8_like cd16108
ubiquitin-like (Ubl) domain found in autophagy-related 8 (ATG8) and similar proteins; The ATG8 ...
 27-110 1.83e-46

ubiquitin-like (Ubl) domain found in autophagy-related 8 (ATG8) and similar proteins; The ATG8 family of proteins constitute a single member in Saccharomyces cerevisiae, Atg8p, and multiple homologs in higher eukaryotes, they are multifunctional ubiquitin-like (Ubl) key regulators of autophagy. The ATG8 system is a Ubl conjugation system that is essential for autophagosome formation. In the ATG8 system, a cysteine protease (ATG4) cleaves a C-terminal arginine from ATG8, and then the exposed C-terminal glycine is conjugated to phosphatidylethanolamine (PE) by ATG7, an E1-like enzyme, and ATG3, an E2-like enzyme. The mammalian ATG8 family is classified into three subfamilies: i) MAP1LC3 (microtubule associated protein 1 light chain 3) which includes MAP1LC3A, MAP1LC3B, MAP1LC3B2, and MAP1LC3C, ii) GABARAP (GABA type A receptor associated protein) which includes GABARAP, GABARAPL1, and GABARAPL3, and iii) GABARAPL2 (GABA type A receptor associated protein like 2), also known as GATE-16 (golgi-associated adenosine triphosphatase enhancer of 16 kDa).


Pssm-ID: 340525  Cd Length: 85  Bit Score: 144.26  E-value: 1.83e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219  27 DRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLY 106
Cdd:cd16108   1 DRIPVIVEKAPKSDLPDIDKKKFLVPSDLTVGQFMYIIRKRIKLSPEKAIFLFVNNTLPPTSALMSEVYEEYKDEDGFLY 80


                ....
gi 13899219 107 VAYS 110
Cdd:cd16108  81 VKYS 84
Ubl_Autophagy_like cd01611
ubiquitin-like (Ubl) domain found in autophagy-related ubiquitin-like protein; Autophagy is an ...
 28-111 1.73e-40

ubiquitin-like (Ubl) domain found in autophagy-related ubiquitin-like protein; Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. The autophagy-related ubiquitin-like proteins, such as Saccharomyces cerevisiae Atg8p, undergo a unique ubiquitin-like (Ubl) conjugation, a process essential for autophagosome formation. Ubiquitin is a protein modifier in eukaryotes that is involved in various cellular processes including transcriptional regulation, cell cycle control, and DNA repair. The ubiquitination process comprises a cascade of E1, E2 and E3 enzymes that results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. ATG8 family proteins undergo multistep modifications by the E1-like (ubiquitin activating) enzyme ATG7, and the E2-like (ubiquitin conjugating) enzyme ATG3. The mammalian ATG8 family is classified into three subfamilies: i) MAP1LC3 (microtubule associated protein 1 light chain 3) which includes MAP1LC3A, MAP1LC3B, MAP1LC3B2, and MAP1LC3C, ii) GABARAP (GABA type A receptor associated protein) which includes GABARAP, GABARAPL1, and GABARAPL3, and iii) GABARAPL2 (GABA type A receptor associated protein like 2), also known as GATE-16 (golgi-associated adenosine triphosphatase enhancer of 16 kDa).


Pssm-ID: 340453  Cd Length: 84  Bit Score: 129.47  E-value: 1.73e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219  28 RVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYV 107
Cdd:cd01611   1 KIPVILEKAGKTKIPILDKKKYLVPRDLTVGQLIDFIRKRLKLVAEEALFIFVNQFAPPTSAEMGTLYEEHGDEDGFLYL 80


                ....
gi 13899219 108 AYSD 111
Cdd:cd01611  81 HYSK 84
Ubl_ATG8_MAP1LC3 cd16129
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3 (MAP1LC3); ...
 14-115 5.96e-29

ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3 (MAP1LC3); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. MAP1LC3 (also known as LC3) has a ubiquitin-like (Ubl) fold and belongs to the ATG8 autophagy protein family. A Ubl conjugation of MAP1LC3 by the phospholipid phosphatidylethanolamine (PE) is an essential process for the formation of autophagosomes. MAP1LC3 is cleaved by the cysteine protease ATG4 and is then conjugated with PE by E1-like enzyme ATG7 and ATG3, an E2-like enzyme. The Ubl conversion of MAP1LC3 is known as a marker of autophagy-induction. This sub-family includes MAP1LC3A, MAP1LC3B, and MAP1LC3C, each encoded by a different MAP1LC3 gene.


Pssm-ID: 340546  Cd Length: 105  Bit Score: 100.88  E-value: 5.96e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219  14 RKKEGEKIRKKYPDRVPVIVEKAPKAR-VPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNN-TIPPTSATM 91
Cdd:cd16129   2 RKKDVEEIREKHPNKIPVIIERYKGEKqLPLLDKTKFLVPDHVTMSELVKIIRRRLQLNPTQAFFLLVNQrSMVSVSTPM 81

                        90       100
                ....*....|....*....|....
gi 13899219  92 GQLYEDNHEEDYFLYVAYSDESVY 115
Cdd:cd16129  82 SEVYRREKDEDGFLYMVYASQETF 105
Ubl_ATG8_MAP1LC3C cd17236
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3C (MAPLC3C); ...
 5-115 2.61e-27

ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3C (MAPLC3C); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. MAP1LC3C belongs to the MAP1LC3 (short name LC3) family proteins. MAP1LC3 has a ubiquitin-like (Ubl) fold that belongs to the autophagy-related 8 (ATG8) protein family. A Ubl conjugation of MAP1LC3 by the phospholipid phosphatidylethanolamine (PE) is an essential process for the formation of autophagosomes. MAP1LC3 is cleaved by cysteine protease ATG4 and then conjugated with PE by E1-like enzyme ATG7 and ATG3, a E2-like enzyme. The Ubl conversion of MAP1LC3 is known as a marker of autophagy-induction. ATG8 proteins are ubiquitously expressed, although some subfamily members are expressed at increased levels in certain tissues, e.g. MAP1LC3C is transcribed at lower levels than other members of MAP1LC3 subfamily and expressed predominantly in the lung.


Pssm-ID: 340756  Cd Length: 113  Bit Score: 96.74  E-value: 2.61e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKAR-VPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNN- 82
Cdd:cd17236   1 FKQRKSLASRKEEVAGIRAKFPNKIPVIVERYYKEKnLPILDKTKFLVPQELTMSQFVTIIRNRMSLTATQAFYLLVNNk 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 13899219  83 TIPPTSATMGQLYEDNHEEDYFLYVAYSDESVY 115
Cdd:cd17236  81 SLASMSTTMAEVYRDEKDEDGFLYMTYASQEMF 113
Ubl_ATG8_MAP1LC3A cd17234
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3A (MAP1LC3A); ...
 5-116 7.71e-21

ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3A (MAP1LC3A); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. MAP1LC3A is belong to MAP1LC3 (short name LC3) family proteins. MAP1LC3 has a ubiquitin-like fold (Ubl) that belongs to the autophagy-related 8 (ATG8) protein family. A Ubl conjugation of MAP1LC3 by the phospholipid phosphatidylethanolamine (PE) is an essential process for the formation of autophagosomes. MAP1LC3 is cleaved by cysteine protease ATG4 and then conjugated with PE by E1-like enzyme ATG7 and ATG3, an E2-like enzyme. The Ubl conversion of MAPLC3 is known as a marker of autophagy-induction. MAP1LC3A staining patterns are used for different cancer diagnostic.


Pssm-ID: 340754  Cd Length: 117  Bit Score: 80.48  E-value: 7.71e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAP-KARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVN-N 82
Cdd:cd17234   4 FKQRRSFADRCKEVQQIRDQHPSKIPVIIERYKgEKQLPVLDKTKFLVPDHVNMSELVKIIRRRLQLNPTQAFFLLVNqH 83

                        90       100       110
                ....*....|....*....|....*....|....
gi 13899219  83 TIPPTSATMGQLYEDNHEEDYFLYVAYSDESVYG 116
Cdd:cd17234  84 SMVSVSTPIADIYEQEKDEDGFLYMVYASQETFG 117
Ubl_ATG8_MAP1LC3B cd17235
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3B (MAP1LC3B); ...
 5-115 3.33e-17

ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3B (MAP1LC3B); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. MAPLC3B belongs to the MAP1LC3 (short name LC3) family proteins. MAP1LC3 has a ubiquitin-like (Ubl) fold and belongs to the autophagy-related 8 (ATG8) protein family. A Ubl conjugation of MAPLC3 by the phospholipid phosphatidylethanolamine (PE) is an essential process for the formation of autophagosomes. MAP1LC3 is cleaved by cysteine protease ATG4 and then conjugated with PE by E1-like enzyme ATG7 and ATG3, an E2-like enzyme. The Ubl conversion of MAP1LC3 is known as a marker of autophagy-induction. All MAP1LC3 proteins are dispensable for basal autophagy; however, it has been shown that MAP1LC3B is responsible for selective degradation of p62 through autophagy.


Pssm-ID: 340755  Cd Length: 115  Bit Score: 71.31  E-value: 3.33e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219   5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAP-KARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVN-N 82
Cdd:cd17235   3 FKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKgEKQLPVLDKTKFLVPDHVNMSELIKIIRRRLQLNANQAFFLLVNgH 82

                        90       100       110
                ....*....|....*....|....*....|...
gi 13899219  83 TIPPTSATMGQLYEDNHEEDYFLYVAYSDESVY 115
Cdd:cd17235  83 SMVSVSTPISEVYESEKDEDGFLYMVYASQETF 115
PTZ00380 PTZ00380
microtubule-associated protein (MAP); Provisional
 5-116 6.65e-10

microtubule-associated protein (MAP); Provisional


Pssm-ID: 173572  Cd Length: 121  Bit Score: 52.42  E-value: 6.65e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219    5 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARvpdlDKRKYL-VPSDLTVGQFYFLIRKRIHLRPEDaLFFFVNNT 83
Cdd:PTZ00380   4 YHSSNPVEARRAECARLQAKYPGHVAVVVEAAEKAG----SKVHFLaLPRDATVAELEAAVRQALGTSAKK-VTLAIEGS 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 13899219   84 IPPTSATMGQLYEDNHEEDYFLYVAYSDESVYG 116
Cdd:PTZ00380  79 TPAVTATVGDIADACKRDDGFLYVSVRTEQAMG 111
Ubiquitin_like_fold cd00196
Beta-grasp ubiquitin-like fold; Ubiquitin is a protein modifier that is involved in various ...
 38-101 1.51e-07

Beta-grasp ubiquitin-like fold; Ubiquitin is a protein modifier that is involved in various cellular processes including transcriptional regulation, cell cycle control, and DNA repair in eukaryotes. The ubiquitination process comprises a cascade of E1, E2 and E3 enzymes that results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. Ubiquitin-like proteins have similar ubiquitin beta-grasp fold and attach to other proteins in a ubiquitin-like manner but with biochemically distinct roles. Ubiquitin and ubiquitin-like proteins conjugate and deconjugate via ligases and peptidases to covalently modify target polypeptides. Some other ubiquitin-like domains have adaptor roles in ubiquitin-signaling by mediating protein-protein interaction. In addition to Ubiquitin-like (Ubl) domain, Ras-associating (RA) domain, F0/F1 sub-domain of FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, TGS (ThrRS, GTPase and SpoT) domain, Ras-binding domain (RBD), Ubiquitin regulatory domain X (UBX), Dublecortin-like domain, and RING finger- and WD40-associated ubiquitin-like (RAWUL) domain have beta-grasp ubiquitin-like folds, and are included in this superfamily.


Pssm-ID: 340450  Cd Length: 68  Bit Score: 45.01  E-value: 1.51e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 13899219  38 KARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLrPEDALFFFVNNTIPPTSATMGQLYEDNHEE 101
Cdd:cd00196   2 KVETPSLKKIVVAVPPSTTLRQVLEKVAKRIGL-PPDVIRLLFNGQVLDDLMTAKQVGLEPGEE 64
APG12 pfam04110
Ubiquitin-like autophagy protein Apg12; In yeast, 15 Apg proteins coordinate the formation of ...
 37-116 3.01e-07

Ubiquitin-like autophagy protein Apg12; In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells. The Apg12 system is one of the ubiquitin-like protein conjugation systems conserved in eukaryotes. It was first discovered in yeast during systematic analyses of the apg mutants defective in autophagy. Covalent attachment of Apg12-Apg5 is essential for autophagy.


Pssm-ID: 397985  Cd Length: 87  Bit Score: 44.71  E-value: 3.01e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13899219    37 PKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPT-SATMGQLYEdNHEEDYFLYVAYSDESVY 115
Cdd:pfam04110   8 AIGDAPILKKSKFKVNPSQTFASVILFLKKFLKLQASDSLFLYVNNSFAPSpDQIVGNLYE-CFGTDGKLVLNYCISVAW 86


                  .
gi 13899219   116 G 116
Cdd:pfam04110  87 G 87
Ubl_ATG12 cd01612
ubiquitin-like (Ubl) domain found in autophagy-related protein 12 (ATG12); Autophagy is an ...
 37-110 1.64e-06

ubiquitin-like (Ubl) domain found in autophagy-related protein 12 (ATG12); Autophagy is an essential intracellular process that targets large protein complexes, bacterial pathogens, and organelles for degradation. The autophagy-related ubiquitin-like (Ubl) proteins such as ATG12 protein have a conserved Ubl fold structure and undergo a unique Ubl conjugation, a process essential for autophagosome formation. ATG12 is conjugated to ATG5 by multistep modifications of the E1-like (ubiquitin activating) enzyme ATG7, and the E2-like (ubiquitin conjugating) enzyme ATG10. The ATG12-ATG5 conjugate facilitates the lipidation of ATG8 and directs its correct subcellular localization. ATG12 is localized at the developing autophagosome.


Pssm-ID: 340454  Cd Length: 86  Bit Score: 42.89  E-value: 1.64e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 13899219  37 PKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTIPPT-SATMGQLYeDNHEEDYFLYVAYS 110
Cdd:cd01612   8 AVGDAPILKQKKFKVSASQKFASVIDFLRKQLKLKPSESLFLYINQSFAPSpDEEVGDLY-DCFGSNGKLVLNYC 81
 
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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