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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.636	a.217.1	Description not found.
View	Download	0.626	a.217.1	Description not found.
View	Download	0.615	a.217.1	Description not found.
View	Download	0.602	d.314.1	Description not found.
View	Download	0.582	a.10.2	Description not found.
View	Download	0.513	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.491	a.8.3	Families 57/38 glycoside transferase middle domain
View	Download	0.451	a.163.1	Crustacean CHH/MIH/GIH neurohormone
View	Download	0.451	a.4.1	Homeodomain-like
View	Download	0.443	a.4.1	Homeodomain-like

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