YRC Public Data Repository - Protein Structure Prediction

Protein:	ATG4
Organism:	Saccharomyces cerevisiae
Length:	506 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for ATG4.

Description	E-value	Query Range	Subject Range
ATG4_YEAS7 - Cysteine protease ATG4 OS=Saccharomyces cerevisiae (strain YJM789) GN=ATG4 PE=3 SV=1 ATG4_YEAST - Cysteine protease ATG4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ATG4 PE=1 SV=2 gi\|190409197 - gi\|190409197\|gb\|EDV12462.1\| anchor protein [Saccharomyces cerevisiae RM11-1a] ATG4 - Conserved cysteine protease required for autophagy; cleaves Atg8p to a form required for autophagoso...	0.0	[13..506]	[1..494]
gi\|14042685 - gi\|14042685\|dbj\|BAB55353.1\| unnamed protein product [Homo sapiens]	0.0	[83..401]	[25..358]
gi\|220955642, gi... - gi\|220955642\|gb\|ACL90364.1\| Atg4-PA [synthetic construct], gi\|220945806\|gb\|ACL85446.1\| Atg4-PA [synt... Atg4-PA - The gene Autophagy-specific gene 4 is referred to in FlyBase by the symbol Dmel\Atg4 (CG4428, FBgn00...	0.0	[84..409]	[50..362]
atg-4.2 - status:Partially_confirmed UniProt:Q9U1N6 protein_id:CAB54515.1	9.0E-94	[87..397]	[151..475]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDFLSRIGV IYMQRWLQLW KMDLVQKVSH GVFEGSSEEP AALMNHDYIV LGEVYPERDE  60
   61 ESGAEQCEQD CRYRGEAVSD GFLSSLFGRE ISSYTKEFLL DVQSRVNFTY RTRFVPIARA 120
  121 PD

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [123-445]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GPSPLSLNLL VRTNPISTIE DYIANPDCFN TDIGWGCMIR TGQSLLGNAL QILHLGRDFR  60
   61 VNGNESLERE SKFVNWFNDT PEAPFSLHNF VSAGTELSDK RPGEWFGPAA TARSIQSLIY 120
  121 GFPECGIDDC IVSVSSGDIY ENEVEKVFAE NPNSRILFLL GVKLGINAVN ESYRESICGI 180
  181 LSSTQSVGIA GGRPSSSLYF FGYQGNEFLH FDPHIPQPAV EDSFVESCHT SKFGKLQLSE 240
  241 MDPSMLIGIL IKGEKDWQQW KLEVAESAII NVLAKRMDDF DVSCSMDDVE SVSSNSMKKD 300
  301 ASNNENLGVL EGDYVDIGAI FPH

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	170.443697
Match:	PF03416
Description:	Peptidase family C54

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [446-506]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TTNTEDVDEY DCFQDIHCKK QKIVVMGNTH TVNANLTDYE VEGVLVEKET VGIHSPIDEK  60
   61 C

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits