YRC Public Data Repository - Protein Structure Prediction

Protein:	PSMD6_ARATH
Organism:	Arabidopsis thaliana
Length:	387 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 PSMD6_ARATH.

Description	E-value	Query Range	Subject Range
gi\|114587651 - gi\|114587651\|ref\|XP_520898.2\| PREDICTED: proteasome (prosome, macropain) 26S subunit, non-ATPase, 6 ...	257.0	[0..4]	[387..226]
gi\|147903745, gi... - gi\|54038456\|gb\|AAH84351.1\| LOC495148 protein [Xenopus laevis], gi\|147903745\|ref\|NP_001088312.1\| hypo...	250.0	[0..3]	[387..7]
AGAP002061-PA - 26S proteasome regulatory subunit N7\|protein_coding\|2R:14716192:14717361:1\|gene:AGAP002061 gi\|58395080, gi\|... - gi\|58395080\|ref\|XP_320986.2\| AGAP002061-PA [Anopheles gambiae str. PEST], gi\|55233320\|gb\|EAA01099.3\|...	250.0	[0..4]	[387..8]
PSMD6_MOUSE - 26S proteasome non-ATPase regulatory subunit 6 OS=Mus musculus GN=Psmd6 PE=1 SV=1	247.0	[0..4]	[387..8]
gi\|73985103 - gi\|73985103\|ref\|XP_541816.2\| PREDICTED: similar to 26S proteasome non-ATPase regulatory subunit 6 (2...	247.0	[0..4]	[387..8]
gi\|208965390 - gi\|208965390\|dbj\|BAG72709.1\| proteasome (prosome, macropain) 26S subunit, non-ATPase, 6 [synthetic c... ENSPTRT00000028219 - null PSMD6 - proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	247.0	[0..4]	[387..8]
gi\|91088601 - gi\|91088601\|ref\|XP_973643.1\| PREDICTED: similar to 26S proteasome non-ATPase regulatory subunit 6 [T...	247.0	[0..4]	[387..8]
PSMD6_BOVIN - 26S proteasome non-ATPase regulatory subunit 6 OS=Bos taurus GN=PSMD6 PE=2 SV=1	247.0	[0..4]	[387..8]
gi\|89268727, gi\|... - gi\|89268727\|emb\|CAJ83374.1\| proteasome (prosome, macropain) 26S subunit, non-ATPase, 6 [Xenopus trop...	247.0	[0..4]	[387..8]
gi\|149040032, gi... - gi\|38454206\|ref\|NP_942025.1\| proteasome, 26S, non-ATPase regulatory subunit 6 [Rattus norvegicus], g...	246.0	[0..4]	[387..8]

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Predicted Domain #1

Region A:
Residues: [1-205]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDGGAEGSQQ PHLILANKLF LLTHPDVPDI EKVQLKSEVL DFIRSHGMAP LYETLIASSV  60
   61 LDLDQSLLES MRAANEEELK KLDEKIADAE ENLGESEVRE AHLAKALYFI RISDKEKALE 120
  121 QLKLTEGKTV AVGQKMDVVF YTLQLAFFYM DFDLVSKSID KAKKLFEEGG DWERKNRLKV 180
  181 YEGLYCMSTR NFKKAASLFL DSIST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	6.09691
Match:	2fo7A
Description:	Crystal structure of an 8 repeat consensus TPR superhelix (trigonal crystal form)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [206-272]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FTTYEIFPYE TFIFYTVLTS IITLDRVSLK QKVVDAPEIL TVLGKIPFLS EFLNSLYECQ  60
   61 YKAFFSA

[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.

Predicted Domain #3

Region A:
Residues: [273-387]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FAGMAVQIKY DRYLYPHFRF YMREVRTVVY SQFLESYKSV TVEAMAKAFG VSVDFIDQEL  60
   61 SRFIAAGKLH CKIDKVAGVL ETNRPDAKNA LYQATIKQGD FLLNRIQKLS RVIDL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10.69897
Match:	1ufmA
Description:	Solution structure of the PCI domain
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