YRC Public Data Repository - Protein Structure Prediction

Protein:	ufd1
Organism:	Schizosaccharomyces pombe
Length:	342 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 ufd1.

Description	E-value	Query Range	Subject Range
gi\|42550903, gi\|... - gi\|46123755\|ref\|XP_386431.1\| hypothetical protein FG06255.1 [Gibberella zeae PH-1], gi\|42550903\|gb\|E...	436.0	[0..6]	[337..1]
gi\|39942190, gi\|... - gi\|39942190\|ref\|XP_360632.1\| hypothetical protein MGG_03175 [Magnaporthe grisea 70-15], gb\|EAA51580....	416.0	[0..16]	[332..1]
gi\|220701068, gi... - gi\|238483559\|ref\|XP_002373018.1\| ubiquitin fusion degradation protein Ufd1, putative [Aspergillus fl... gi\|169766788 - gi\|169766788\|ref\|XP_001817865.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|83765720 - gi\|83765720\|dbj\|BAE55863.1\| unnamed protein product [Aspergillus oryzae]	414.0	[0..1]	[327..1]
gi\|26353928 - gi\|26353928\|dbj\|BAC40594.1\| unnamed protein product [Mus musculus]	411.0	[0..14]	[326..4]
gi\|109093262 - gi\|109093262\|ref\|XP_001104799.1\| PREDICTED: similar to ubiquitin fusion degradation 1-like isoform A...	411.0	[0..14]	[326..4]
gi\|62901862 - gi\|62901862\|gb\|AAY18882.1\| ubiquitin fusion degradation 1-like [synthetic construct]	410.0	[0..5]	[326..19]
gi\|117644502, gi... - gi\|117644502\|emb\|CAL37746.1\| hypothetical protein [synthetic construct], gi\|109452142\|emb\|CAK54933.1... gi\|149758697 - gi\|149758697\|ref\|XP_001488669.1\| PREDICTED: similar to Ubiquitin fusion degradation protein 1 homolo... UFD1L - ubiquitin fusion degradation 1 like (yeast) CCDS13761.1_1 - null HGNC:12520\|MIM:6... - fusion degradation 1 like (yeast)	409.0	[0..14]	[326..4]
UFD1_RAT - Ubiquitin fusion degradation protein 1 homolog OS=Rattus norvegicus GN=Ufd1l PE=1 SV=1	409.0	[0..14]	[326..4]
gi\|45383542, gi\|... - gi\|45383542\|ref\|NP_989632.1\| ubiquitin fusion degradation 1-like [Gallus gallus], gi\|15426003\|gb\|AAK...	409.0	[0..14]	[326..4]

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Predicted Domain #1

Region A:
Residues: [1-260]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFGGSFFSSD DDGFSMMSQL RSAFHNNVNQ RFDTRYRCYP VAMIPGEERP NVNYGGKVIL  60
   61 PPSALEKLSR LNVSYPMLFD FENEAAEKKT HGGVLEFIAE EGRVYLPYWM MTTLSLEPGD 120
  121 LVRVINTDIA QGSYVKLQPQ SVNFLDITDH RAVLENALRN FSTLTKSDIF EILYNDQVYQ 180
  181 IKVIDVQPDD SRHVVSVVET DLVVDFDPPI GYEESLQKNK QQNIAGVQGT MVTKIGYDEL 240
  241 VRQGDSNLMK GTGTKLNGKE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	83.045757
Match:	1zc1A
Description:	Ufd1 exhibits the AAA-ATPase fold with two distinct ubiquitin interaction sites
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [261-342]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VAEVPKINLL DVEKQECPAP LILPLGTYFF GYPYKAPSIE EDSKKDPNLF KFEGAGTSLR  60
   61 ASRKTNGTMG KGSSDDPIDI DA

[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