YRC Public Data Repository - Protein Structure Prediction

Protein:	RPN9
Organism:	Saccharomyces cerevisiae
Length:	393 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 RPN9.

Description	E-value	Query Range	Subject Range
RPN9 - Non-ATPase regulatory subunit of the 26S proteasome, has similarity to putative proteasomal subunits... gi\|190404642 - gi\|190404642\|gb\|EDV07909.1\| 26S proteasome regulatory subunit RPN9 [Saccharomyces cerevisiae RM11-1a... RPN9_YEAST - 26S proteasome regulatory subunit RPN9 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=R...	1.0E-93	[1..393]	[1..393]
gi\|125526148 - gi\|125526148\|gb\|EAY74262.1\| hypothetical protein OsI_02152 [Oryza sativa Indica Group] gi\|34914614, gi\|... - gi\|34914614\|ref\|NP_918654.1\| putative 26S proteasome subunit [Oryza sativa (japonica cultivar-group)...	1.0E-91	[10..391]	[5..382]
CSN2_RAT - COP9 signalosome complex subunit 2 OS=Rattus norvegicus GN=Cops2 PE=1 SV=1 gi\|57108185 - gi\|57108185\|ref\|XP_535470.1\| PREDICTED: similar to COP9 (constitutive photomorphogenic) homolog, sub... gi\|190689395, gi... - gi\|190690757\|gb\|ACE87153.1\| COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) prote... tr\|M3XER3\|M3XER3... - COP9 signalosome subunit 2 OS=Felis catus GN=COPS2 PE=4 SV=1 CSN2_MOUSE - COP9 signalosome complex subunit 2 OS=Mus musculus GN=Cops2 PE=1 SV=1 gi\|109081050 - gi\|109081050\|ref\|XP_001113656.1\| PREDICTED: similar to COP9 (constitutive photomorphogenic) homolog,... COPS2 - COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis) gi\|157427726, gi... - gi\|157427726\|ref\|NP_001098771.1\| COP9 constitutive photomorphogenic homolog subunit 2 [Sus scrofa], ... gi\|114656917 - gi\|114656917\|ref\|XP_510388.2\| PREDICTED: similar to COP9 complex subunit 2 isoform 2 [Pan troglodyte... gi\|149691961 - gi\|149691961\|ref\|XP_001502205.1\| PREDICTED: similar to COP9 complex subunit 2 isoform 1 [Equus cabal... gi\|224062509 - gi\|224062509\|ref\|XP_002198608.1\| PREDICTED: COP9 constitutive photomorphogenic homolog subunit 2 [Ta...	6.0E-89	[10..384]	[76..438]
gi\|18606281 - gi\|18606281\|gb\|AAH23096.1\| Cops2 protein [Mus musculus]	1.0E-88	[10..384]	[73..435]
gi\|194190744, gi... - gi\|195577757\|ref\|XP_002078735.1\| GD22368 [Drosophila simulans], gi\|194190744\|gb\|EDX04320.1\| GD22368 ... FBpp0308633, FBp... - The gene alien is referred to in FlyBase by the symbol Dmel\alien (CG9556, FBgn0013746). It is a pro... gi\|195473219, gi... - gi\|195473219\|ref\|XP_002088893.1\| GE10643 [Drosophila yakuba], gi\|194174994\|gb\|EDW88605.1\| GE10643 [D... gi\|194130177, gi... - gi\|195339379\|ref\|XP_002036297.1\| GM12583 [Drosophila sechellia], gi\|194130177\|gb\|EDW52220.1\| GM12583... gi\|194858832, gi... - gi\|194858832\|ref\|XP_001969266.1\| GG24040 [Drosophila erecta], gi\|190661133\|gb\|EDV58325.1\| GG24040 [D...	5.0E-86	[10..384]	[77..439]
CSN2_ARATH - COP9 signalosome complex subunit 2 OS=Arabidopsis thaliana GN=CSN2 PE=1 SV=1	3.0E-79	[9..384]	[69..434]

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Predicted Domain #1

Region A:
Residues: [1-133]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFNNHEIDTI LSTLRMEADP SLHPLFEQFE KFYEEKLWFQ LSESLTKFFD DAKSTPLRLR  60
   61 LYDNFVSKFY DKINQLSVVK YLLASLKDSK DFDESLKYLD DLKAQFQELD SKKQRNNGSK 120
  121 DHGDGILLID SEI

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.88
Match:	1hz4A
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [134-251]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ARTYLLKNDL VKARDLLDDL EKTLDKKDSI PLRITNSFYS TNSQYFKFKN DFNSFYYTSL  60
   61 LYLSTLEPST SITLAERQQL AYDLSISALL GDKIYNFGEL LHHPIMETIV NDSNYDWL

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.88
Match:	1hz4A
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [252-393]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FQLLNALTVG DFDKFDSLIK VQISKIPILA QHESFLRQKI CLMTLIETVF VKNIRMLSFE  60
   61 DISKATHLPK DNVEHLVMRA ISLGLLKGSI DQVNELVTIS WVQPRIISGD QITKMKDRLV 120
  121 EWNDQVEKLG KKMEARGQSI WV

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.88
Match:	1hz4A
Description:	Transcription factor MalT domain III
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

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Top Sequence Alignment Hits