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Conserved domains on  [gi|530366218|ref|XP_005273196|]
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microtubule-associated proteins 1A/1B light chain 3C isoform X1 [Homo sapiens]

Protein Classification

ubiquitin family protein( domain architecture ID 13020673)

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_MAP1LC3C cd17236
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3C (MAPLC3C); ...
 13-125 1.74e-75

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: 220.01  E-value: 1.74e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNK 92
Cdd:cd17236    1 FKQRKSLASRKEEVAGIRAKFPNKIPVIVERYYKEKNLPILDKTKFLVPQELTMSQFVTIIRNRMSLTATQAFYLLVNNK 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYASQETF 125
Cdd:cd17236   81 SLASMSTTMAEVYRDEKDEDGFLYMTYASQEMF 113
 
Name Accession Description Interval E-value
Ubl_ATG8_MAP1LC3C cd17236
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3C (MAPLC3C); ...
 13-125 1.74e-75

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: 220.01  E-value: 1.74e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNK 92
Cdd:cd17236    1 FKQRKSLASRKEEVAGIRAKFPNKIPVIVERYYKEKNLPILDKTKFLVPQELTMSQFVTIIRNRMSLTATQAFYLLVNNK 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYASQETF 125
Cdd:cd17236   81 SLASMSTTMAEVYRDEKDEDGFLYMTYASQEMF 113
ATG8 pfam02991
Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a ...
 22-126 3.31e-44

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: 140.57  E-value: 3.31e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218   22 RQEEVAGIRAKFPNKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNkSLVSMSATM 101
Cdd:pfam02991   2 RQKESEKIREKYPDRIPVIIEKASGSD-LPDIDKKKYLVPADLTVGQFIYIIRKRIQLRPEKAIFLFVNN-TLPPTSATM 79

                          90       100
                  ....*....|....*....|....*
gi 530366218  102 AEIYRDYKDEDGFVYMTYASQETFG 126
Cdd:pfam02991  80 SALYEEEKDEDGFLYMVYSGENTFG 104
PTZ00380 PTZ00380
microtubule-associated protein (MAP); Provisional
 22-130 9.41e-06

microtubule-associated protein (MAP); Provisional


Pssm-ID: 173572  Cd Length: 121  Bit Score: 42.41  E-value: 9.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  22 RQEEVAGIRAKFPNKIPVVVERYPRETflpplDKTKFL-VPQELTMTQFLSIIRSRMVLRATEAfyLLVNNKSLVSMSAT 100
Cdd:PTZ00380  13 RRAECARLQAKYPGHVAVVVEAAEKAG-----SKVHFLaLPRDATVAELEAAVRQALGTSAKKV--TLAIEGSTPAVTAT 85

                         90       100       110
                 ....*....|....*....|....*....|
gi 530366218 101 MAEIYRDYKDEDGFVYMTYASQETFGCLES 130
Cdd:PTZ00380  86 VGDIADACKRDDGFLYVSVRTEQAMGAFAS 115
 
Name Accession Description Interval E-value
Ubl_ATG8_MAP1LC3C cd17236
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3C (MAPLC3C); ...
 13-125 1.74e-75

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: 220.01  E-value: 1.74e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNK 92
Cdd:cd17236    1 FKQRKSLASRKEEVAGIRAKFPNKIPVIVERYYKEKNLPILDKTKFLVPQELTMSQFVTIIRNRMSLTATQAFYLLVNNK 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYASQETF 125
Cdd:cd17236   81 SLASMSTTMAEVYRDEKDEDGFLYMTYASQEMF 113
Ubl_ATG8_MAP1LC3 cd16129
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3 (MAP1LC3); ...
 21-125 1.18e-61

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: 184.85  E-value: 1.18e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  21 IRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNKSLVSMSAT 100
Cdd:cd16129    1 QRKKDVEEIREKHPNKIPVIIERYKGEKQLPLLDKTKFLVPDHVTMSELVKIIRRRLQLNPTQAFFLLVNQRSMVSVSTP 80

                         90       100
                 ....*....|....*....|....*
gi 530366218 101 MAEIYRDYKDEDGFVYMTYASQETF 125
Cdd:cd16129   81 MSEVYRREKDEDGFLYMVYASQETF 105
Ubl_ATG8_MAP1LC3A cd17234
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3A (MAP1LC3A); ...
 11-126 1.08e-46

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: 147.51  E-value: 1.08e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  11 RPFKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVN 90
Cdd:cd17234    2 RPFKQRRSFADRCKEVQQIRDQHPSKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELVKIIRRRLQLNPTQAFFLLVN 81

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 530366218  91 NKSLVSMSATMAEIYRDYKDEDGFVYMTYASQETFG 126
Cdd:cd17234   82 QHSMVSVSTPIADIYEQEKDEDGFLYMVYASQETFG 117
ATG8 pfam02991
Autophagy protein Atg8 ubiquitin like; Light chain 3 is proposed to function primarily as a ...
 22-126 3.31e-44

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: 140.57  E-value: 3.31e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218   22 RQEEVAGIRAKFPNKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNkSLVSMSATM 101
Cdd:pfam02991   2 RQKESEKIREKYPDRIPVIIEKASGSD-LPDIDKKKYLVPADLTVGQFIYIIRKRIQLRPEKAIFLFVNN-TLPPTSATM 79

                          90       100
                  ....*....|....*....|....*
gi 530366218  102 AEIYRDYKDEDGFVYMTYASQETFG 126
Cdd:pfam02991  80 SALYEEEKDEDGFLYMVYSGENTFG 104
Ubl_ATG8_MAP1LC3B cd17235
ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3B (MAP1LC3B); ...
 11-125 1.90e-39

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: 129.09  E-value: 1.90e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  11 RPFKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVN 90
Cdd:cd17235    1 KTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELIKIIRRRLQLNANQAFFLLVN 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 530366218  91 NKSLVSMSATMAEIYRDYKDEDGFVYMTYASQETF 125
Cdd:cd17235   81 GHSMVSVSTPISEVYESEKDEDGFLYMVYASQETF 115
Ubl_ATG8_GABARAPL2 cd17163
ubiquitin-like (Ubl) domain found in GABA type A receptor associated protein like 2 (GABARAPL2, ...
 13-126 3.91e-36

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: 120.22  E-value: 3.91e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNnK 92
Cdd:cd17163    1 FKEEHSLEQRCAESAKIRAKYPDRIPVIVEKVPKSQ-IPDIDKRKFLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVG-K 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYASQETFG 126
Cdd:cd17163   79 VLPQSSATMGQLYEEHKDEDGFLYVAYSGENTFG 112
Ubl_ATG8_like cd16108
ubiquitin-like (Ubl) domain found in autophagy-related 8 (ATG8) and similar proteins; The ATG8 ...
 35-121 4.66e-35

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: 116.91  E-value: 4.66e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  35 NKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNKSLVSmSATMAEIYRDYKDEDGF 114
Cdd:cd16108    1 DRIPVIVEKAPKSD-LPDIDKKKFLVPSDLTVGQFMYIIRKRIKLSPEKAIFLFVNNTLPPT-SALMSEVYEEYKDEDGF 78


                 ....*..
gi 530366218 115 VYMTYAS 121
Cdd:cd16108   79 LYVKYSG 85
Ubl_ATG8 cd16128
ubiquitin-like (Ubl) domain found in Saccharomyces cerevisiae Atg8p and related proteins; ...
 22-122 1.63e-28

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: 100.61  E-value: 1.63e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  22 RQEEVAGIRAKFPNKIPVVVERYPRETFlPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNkSLVSMSATM 101
Cdd:cd16128    4 RKAEAERIRDKYPDRIPVICEKAEKSDI-PDIDKKKYLVPADLTVGQFVYVIRKRIKLSPEKAIFIFVNN-VLPPTAALM 81

                         90       100
                 ....*....|....*....|.
gi 530366218 102 AEIYRDYKDEDGFVYMTYASQ 122
Cdd:cd16128   82 SAIYEEHKDEDGFLYVTYSGE 102
Ubl_ATG8_GABARAP_like cd16127
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 13-120 3.70e-27

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: 97.56  E-value: 3.70e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPReTFLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNk 92
Cdd:cd16127    1 YKEDHPFEKRRSEGEKIRKKYPDRVPVIVEKAPK-ARVADLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNN- 78

                         90       100
                 ....*....|....*....|....*...
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYA 120
Cdd:cd16127   79 VIPPTSATMGQLYQEHHEEDFFLYIAYS 106
Ubl_Autophagy_like cd01611
ubiquitin-like (Ubl) domain found in autophagy-related ubiquitin-like protein; Autophagy is an ...
 36-121 1.39e-26

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: 95.19  E-value: 1.39e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  36 KIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNKSLVSmSATMAEIYRDYKDEDGFV 115
Cdd:cd01611    1 KIPVILEKAGKTK-IPILDKKKYLVPRDLTVGQLIDFIRKRLKLVAEEALFIFVNQFAPPT-SAEMGTLYEEHGDEDGFL 78


                 ....*.
gi 530366218 116 YMTYAS 121
Cdd:cd01611   79 YLHYSK 84
Ubl_ATG8_GABARAP cd17232
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein ...
 13-126 2.06e-24

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: 90.82  E-value: 2.06e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNk 92
Cdd:cd17232    4 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKAR-IGDLDKKKYLVPSDLTVGQFYFLIRKRIHLRAEDALFFFVNN- 81

                         90       100       110
                 ....*....|....*....|....*....|....
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYASQETFG 126
Cdd:cd17232   82 VIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 115
Ubl_ATG8_GABARAPL1_like cd17233
ubiquitin-like (Ubl) domain found in gamma-aminobutyric acid receptor-associated protein-like ...
 13-120 1.84e-23

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: 88.20  E-value: 1.84e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  13 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETfLPPLDKTKFLVPQELTMTQFLSIIRSRMVLRATEAFYLLVNNk 92
Cdd:cd17233    1 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKAR-VPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNN- 78

                         90       100
                 ....*....|....*....|....*...
gi 530366218  93 SLVSMSATMAEIYRDYKDEDGFVYMTYA 120
Cdd:cd17233   79 TIPPTSATMGQLYEDNHEEDYFLYVAYS 106
PTZ00380 PTZ00380
microtubule-associated protein (MAP); Provisional
 22-130 9.41e-06

microtubule-associated protein (MAP); Provisional


Pssm-ID: 173572  Cd Length: 121  Bit Score: 42.41  E-value: 9.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530366218  22 RQEEVAGIRAKFPNKIPVVVERYPRETflpplDKTKFL-VPQELTMTQFLSIIRSRMVLRATEAfyLLVNNKSLVSMSAT 100
Cdd:PTZ00380  13 RRAECARLQAKYPGHVAVVVEAAEKAG-----SKVHFLaLPRDATVAELEAAVRQALGTSAKKV--TLAIEGSTPAVTAT 85

                         90       100       110
                 ....*....|....*....|....*....|
gi 530366218 101 MAEIYRDYKDEDGFVYMTYASQETFGCLES 130
Cdd:PTZ00380  86 VGDIADACKRDDGFLYVSVRTEQAMGAFAS 115
 
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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