YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|117644502, gi...
Organism:	synthetic construct
Length:	307 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 gi|117644502, gi....

Description	E-value	Query Range	Subject Range
UFD1_RAT - Ubiquitin fusion degradation protein 1 homolog OS=Rattus norvegicus GN=Ufd1l PE=1 SV=1	0.0	[1..307]	[1..307]
UFD1_MOUSE - Ubiquitin fusion degradation protein 1 homolog OS=Mus musculus GN=Ufd1l PE=1 SV=2	0.0	[1..307]	[1..307]
gi\|109093262 - gi\|109093262\|ref\|XP_001104799.1\| PREDICTED: similar to ubiquitin fusion degradation 1-like isoform A...	0.0	[1..307]	[1..307]
gi\|62901862 - gi\|62901862\|gb\|AAY18882.1\| ubiquitin fusion degradation 1-like [synthetic construct]	0.0	[2..307]	[26..331]
gi\|45383542, gi\|... - gi\|45383542\|ref\|NP_989632.1\| ubiquitin fusion degradation 1-like [Gallus gallus], gi\|15426003\|gb\|AAK...	0.0	[1..307]	[1..307]
UFD1L - ubiquitin fusion degradation 1 like (yeast)	0.0	[1..307]	[1..343]

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Predicted Domain #1

Region A:
Residues: [1-222]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFSFNMFDHP IPRVFQNRFS TQYRCFSVSM LAGPNDRSDV EKGGKIIMPP SALDQLSRLN  60
   61 ITYPMLFKLT NKNSDRMTHC GVLEFVADEG ICYLPHWMMQ NLLLEEGGLV QVESVNLQVA 120
  121 TYSKFQPQSP DFLDITNPKA VLENALRNFA CLTTGDVIAI NYNEKIYELR VMETKPDKAV 180
  181 SIIECDMNVD FDAPLGYKEP ERQVQHEEST EGEADHSGYA GE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	82.221849
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: [223-307]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGFRAFSGSG NRLDGKKKGV EPSPSPIKPG DIKRGIPNYE FKLGKITFIR NSRPLVKKVE  60
   61 EDEAGGRFVA FSGEGQSLRK KGRKP

[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