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Conserved domains on  [gi|568929060|ref|XP_006503136|]
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cysteine protease ATG4C isoform X3 [Mus musculus]

Protein Classification

cysteine protease ATG4( domain architecture ID 10506323)

cysteine protease ATG4 is required in the cytoplasm for vacuole transport (Cvt) and autophagy

EC:  3.4.22.-
Gene Ontology:  GO:0019786|GO:0006914|GO:0008234|GO:0051697|GO:0006508
MEROPS:  C54
PubMed:  11517925

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Peptidase_C54 pfam03416
Peptidase family C54;
76-311 9.29e-85

Peptidase family C54;


:

Pssm-ID: 460915  Cd Length: 269  Bit Score: 257.82  E-value: 9.29e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060   76 VEEFRKDFISRIWLTYREEFPQIEASALTTDCGWGCTLRTGQMLLAQGLILHFLGRAWTWPDAlhienadsdswtsntvk 155
Cdd:pfam03416   1 PEEFLDDFESRIWFTYRKGFPPIGGSGFTSDTGWGCMLRSGQMLLAQALLRHHLGRDWRWGDP----------------- 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060  156 kftasfeaslsgdrelrtpavslketsgkcpddhaVRNEAYHRKIISWFGDSPVAVFGLHRLIEFGKKS-GKKAGDWYGP 234
Cdd:pfam03416  64 -----------------------------------DEEEETYRKILSWFADDPSAPFSIHQIVQMGKESsGKKPGEWFGP 108

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929060  235 AVVAHILRKAVEEArhpDLQGLTIYVAQDCTVYNSDVidKQTDSVTAGDARDKAVIILVPVRLGGERTNTDYLEFVK 311
Cdd:pfam03416 109 STVAQILKKLVNAD---PWSGLAVYVASDGTVYKDDV--RKLCAPNSASSGEKPLLILVPLRLGLDKINPVYIPALK 180
ATG4_LIR super family cl48338
ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs ...
 335-366 9.20e-03

ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs (AIMs), are short-linear motifs (SLiMs) of autophagy receptors and adaptor proteins that facilitates the selective recruitment of autophagy substrates to the autophagosome. ATG8 proteins are highly conserved in eukaryotes and play a key role in selective autophagy as they recognize and bind different autophagy receptors and adaptors containing a specific class of SLiMs. LIRs are characterized by degenerated sequences with a four-residue core central sequence involved in ATG8-binding, with the W/Y/FxxL/I/V pattern. Based on the aromatic amino acid in position 1 they can be classified into W-type, Y-type and F-type. This entry is the F-type LIR motif from ATG4, which contains the seqeunce FEI/VL. There are acidic residues at the N-terminal of this motif (Asp and Glu), which may contribute to stabilize the binding or may provide specificity toward a certain class of ATG8 proteins.


The actual alignment was detected with superfamily member pfam20166:

Pssm-ID: 466317  Cd Length: 29  Bit Score: 33.39  E-value: 9.20e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 568929060  335 DFTSTAASEEDLFSEDERKNFKRfstEEFVLL 366
Cdd:pfam20166   1 DVTNTSLDSSDVERLEEFFDLED---EDFEIL 29
 
Name Accession Description Interval E-value
Peptidase_C54 pfam03416
Peptidase family C54;
76-311 9.29e-85

Peptidase family C54;


Pssm-ID: 460915  Cd Length: 269  Bit Score: 257.82  E-value: 9.29e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060   76 VEEFRKDFISRIWLTYREEFPQIEASALTTDCGWGCTLRTGQMLLAQGLILHFLGRAWTWPDAlhienadsdswtsntvk 155
Cdd:pfam03416   1 PEEFLDDFESRIWFTYRKGFPPIGGSGFTSDTGWGCMLRSGQMLLAQALLRHHLGRDWRWGDP----------------- 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060  156 kftasfeaslsgdrelrtpavslketsgkcpddhaVRNEAYHRKIISWFGDSPVAVFGLHRLIEFGKKS-GKKAGDWYGP 234
Cdd:pfam03416  64 -----------------------------------DEEEETYRKILSWFADDPSAPFSIHQIVQMGKESsGKKPGEWFGP 108

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929060  235 AVVAHILRKAVEEArhpDLQGLTIYVAQDCTVYNSDVidKQTDSVTAGDARDKAVIILVPVRLGGERTNTDYLEFVK 311
Cdd:pfam03416 109 STVAQILKKLVNAD---PWSGLAVYVASDGTVYKDDV--RKLCAPNSASSGEKPLLILVPLRLGLDKINPVYIPALK 180
ATG4_LIR pfam20166
ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs ...
 335-366 9.20e-03

ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs (AIMs), are short-linear motifs (SLiMs) of autophagy receptors and adaptor proteins that facilitates the selective recruitment of autophagy substrates to the autophagosome. ATG8 proteins are highly conserved in eukaryotes and play a key role in selective autophagy as they recognize and bind different autophagy receptors and adaptors containing a specific class of SLiMs. LIRs are characterized by degenerated sequences with a four-residue core central sequence involved in ATG8-binding, with the W/Y/FxxL/I/V pattern. Based on the aromatic amino acid in position 1 they can be classified into W-type, Y-type and F-type. This entry is the F-type LIR motif from ATG4, which contains the seqeunce FEI/VL. There are acidic residues at the N-terminal of this motif (Asp and Glu), which may contribute to stabilize the binding or may provide specificity toward a certain class of ATG8 proteins.


Pssm-ID: 466317  Cd Length: 29  Bit Score: 33.39  E-value: 9.20e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 568929060  335 DFTSTAASEEDLFSEDERKNFKRfstEEFVLL 366
Cdd:pfam20166   1 DVTNTSLDSSDVERLEEFFDLED---EDFEIL 29
 
Name Accession Description Interval E-value
Peptidase_C54 pfam03416
Peptidase family C54;
76-311 9.29e-85

Peptidase family C54;


Pssm-ID: 460915  Cd Length: 269  Bit Score: 257.82  E-value: 9.29e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060   76 VEEFRKDFISRIWLTYREEFPQIEASALTTDCGWGCTLRTGQMLLAQGLILHFLGRAWTWPDAlhienadsdswtsntvk 155
Cdd:pfam03416   1 PEEFLDDFESRIWFTYRKGFPPIGGSGFTSDTGWGCMLRSGQMLLAQALLRHHLGRDWRWGDP----------------- 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929060  156 kftasfeaslsgdrelrtpavslketsgkcpddhaVRNEAYHRKIISWFGDSPVAVFGLHRLIEFGKKS-GKKAGDWYGP 234
Cdd:pfam03416  64 -----------------------------------DEEEETYRKILSWFADDPSAPFSIHQIVQMGKESsGKKPGEWFGP 108

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929060  235 AVVAHILRKAVEEArhpDLQGLTIYVAQDCTVYNSDVidKQTDSVTAGDARDKAVIILVPVRLGGERTNTDYLEFVK 311
Cdd:pfam03416 109 STVAQILKKLVNAD---PWSGLAVYVASDGTVYKDDV--RKLCAPNSASSGEKPLLILVPLRLGLDKINPVYIPALK 180
ATG4_LIR pfam20166
ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs ...
 335-366 9.20e-03

ATG4, F-type LIR motif; LC3 Interacting Regions (LIRs), also known as ATG8-interacting motifs (AIMs), are short-linear motifs (SLiMs) of autophagy receptors and adaptor proteins that facilitates the selective recruitment of autophagy substrates to the autophagosome. ATG8 proteins are highly conserved in eukaryotes and play a key role in selective autophagy as they recognize and bind different autophagy receptors and adaptors containing a specific class of SLiMs. LIRs are characterized by degenerated sequences with a four-residue core central sequence involved in ATG8-binding, with the W/Y/FxxL/I/V pattern. Based on the aromatic amino acid in position 1 they can be classified into W-type, Y-type and F-type. This entry is the F-type LIR motif from ATG4, which contains the seqeunce FEI/VL. There are acidic residues at the N-terminal of this motif (Asp and Glu), which may contribute to stabilize the binding or may provide specificity toward a certain class of ATG8 proteins.


Pssm-ID: 466317  Cd Length: 29  Bit Score: 33.39  E-value: 9.20e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 568929060  335 DFTSTAASEEDLFSEDERKNFKRfstEEFVLL 366
Cdd:pfam20166   1 DVTNTSLDSSDVERLEEFFDLED---EDFEIL 29
 
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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