YRC Public Data Repository - Protein Structure Prediction

Protein:	RPN6
Organism:	Saccharomyces cerevisiae
Length:	434 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 RPN6.

Description	E-value	Query Range	Subject Range
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...	4.0E-77	[10..431]	[19..443]
gi\|18606281 - gi\|18606281\|gb\|AAH23096.1\| Cops2 protein [Mus musculus]	7.0E-77	[10..431]	[16..440]
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...	6.0E-74	[10..431]	[19..444]
gi\|190405102 - gi\|190405102\|gb\|EDV08369.1\| 26S proteasome regulatory subunit RPN6 [Saccharomyces cerevisiae RM11-1a... gi\|151941906 - gi\|151941906\|gb\|EDN60262.1\| proteasome regulatory particle subunit [Saccharomyces cerevisiae YJM789] RPN6 - Essential, non-ATPase regulatory subunit of the 26S proteasome lid required for the assembly and act... gi\|207347002 - gi\|207347002\|gb\|EDZ73323.1\| YDL097Cp-like protein [Saccharomyces cerevisiae AWRI1631] RPN6_YEAST - 26S proteasome regulatory subunit RPN6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=R...	5.0E-73	[1..434]	[1..434]
CSN2_ARATH - COP9 signalosome complex subunit 2 OS=Arabidopsis thaliana GN=CSN2 PE=1 SV=1	4.0E-69	[9..429]	[12..437]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	3.0E-67	[4..431]	[6..420]

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Predicted Domain #1

Region A:
Residues: [1-141]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLPGSKLEE ARRLVNEKQY NEAEQVYLSL LDKDSSQSSA AAGASVDDKR RNEQETSILE  60
   61 LGQLYVTMGA KDKLREFIPH STEYMMQFAK SKTVKVLKTL IEKFEQVPDS LDDQIFVCEK 120
  121 SIEFAKREKR VFLKHSLSIK L

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	14.43
Match:	1hz4A
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [142-263]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATLHYQKKQY KDSLALINDL LREFKKLDDK PSLVDVHLLE SKVYHKLRNL AKSKASLTAA  60
   61 RTAANSIYCP TQTVAELDLM SGILHCEDKD YKTAFSYFFE SFESYHNLTT HNSYEKACQV 120
  121 LK

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	14.43
Match:	1hz4A
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [264-434]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YMLLSKIMLN LIDDVKNILN AKYTKETYQS RGIDAMKAVA EAYNNRSLLD FNTALKQYEK  60
   61 ELMGDELTRS HFNALYDTLL ESNLCKIIEP FECVEISHIS KIIGLDTQQV EGKLSQMILD 120
  121 KIFYGVLDQG NGWLYVYETP NQDATYDSAL ELVGQLNKVV DQLFEKASVL Y

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	14.43
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

View Structure Prediction Details

Top Sequence Alignment Hits