YRC Public Data Repository - Protein Structure Prediction

Protein:	RPT3
Organism:	Saccharomyces cerevisiae
Length:	428 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 RPT3.

Description	E-value	Query Range	Subject Range
Y1297_ARCFU - Cell division cycle protein 48 homolog AF_1297 OS=Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 ... Y1297_ARCFU, YC9... - (O28972) Cell division cycle protein 48 homolog AF1297, Cell division cycle protein 48 homolog AF_12...	0.0	[1..428]	[281..722]
gi\|18159541, gi\|... - gi\|18312110\|ref\|NP_558777.1\| AAA family ATPase, CDC48 subfamily protein [Pyrobaculum aerophilum str....	0.0	[1..428]	[278..708]
CDC48_SOYBN - Cell division cycle protein 48 homolog OS=Glycine max GN=CDC48 PE=2 SV=1	0.0	[1..427]	[307..760]
YB56_METJA, Y115... - (Q58556) Cell division cycle protein 48 homolog MJ1156, Cell division cycle protein 48 homolog MJ115... Y1156_METJA - Cell division cycle protein 48 homolog MJ1156 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / ...	0.0	[1..399]	[278..676]
gi\|7435751 - pir\|\|A69086 cell division control protein Cdc48 - Methanobacterium thermoautotrophicum (strain Delta... gi\|15679634, gi\|... - gi\|2622767\|gb\|AAB86112.1\| cell division control protein Cdc48 [Methanothermobacter thermautotrophicu...	0.0	[1..427]	[304..732]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..427]	[339..792]
gi\|15920392, gi\|... - gi\|15920392\|ref\|NP_376061.1\| hypothetical protein ST0209 [Sulfolobus tokodaii str. 7], gi\|15621174\|d...	0.0	[1..427]	[211..667]
CD48E_ARATH - Cell division control protein 48 homolog E OS=Arabidopsis thaliana GN=CDC48E PE=1 SV=2	0.0	[1..427]	[306..759]
CDC48_CAPAN - Cell division cycle protein 48 homolog OS=Capsicum annuum GN=CAFP PE=2 SV=1	0.0	[1..427]	[307..758]

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Predicted Domain #1

Region A:
Residues: [1-140]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEELGIVTPV EKAVEEKPAV KSYASLLAQL NGTVNNNSAL SNVNSDIYFK LKKLEKEYEL  60
   61 LTLQEDYIKD EQRHLKRELK RAQEEVKRIQ SVPLVIGQFL EPIDQNTGIV SSTTGMSYVV 120
  121 RILSTLDREL LKPSMSVALH

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

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 #2

Region A:
Residues: [141-343]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RHSNALVDIL PPDSDSSISV MGENEKPDVT YADVGGLDMQ KQEIREAVEL PLVQADLYEQ  60
   61 IGIDPPRGVL LYGPPGTGKT MLVKAVANST KAAFIRVNGS EFVHKYLGEG PRMVRDVFRL 120
  121 ARENAPSIIF IDEVDSIATK RFDAQTGSDR EVQRILIELL TQMDGFDQST NVKVIMATNR 180
  181 ADTLDPALLR PGRLDRKIEF PSL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	557.28043
Match:	1e32A_
Description:	Membrane fusion atpase p97 N-terminal domain , P97-Nn; Membrane fusion atpase p97, D1 domain; Membrane fusion atpase p97 domain 2, P97-Nc
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [344-428]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RDRRERRLIF GTIASKMSLA PEADLDSLII RNDSLSGAVI AAIMQEAGLR AVRKNRYVIL  60
   61 QSDLEEAYAT QVKTDNTVDK FDFYK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	557.28043
Match:	1e32A_
Description:	Membrane fusion atpase p97 N-terminal domain , P97-Nn; Membrane fusion atpase p97, D1 domain; Membrane fusion atpase p97 domain 2, P97-Nc
Matching Structure (courtesy of the PDB):

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