YRC Public Data Repository - Protein Structure Prediction

Protein:	PS13A_ARATH
Organism:	Arabidopsis thaliana
Length:	386 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 PS13A_ARATH.

Description	E-value	Query Range	Subject Range
PSD13_BOVIN - 26S proteasome non-ATPase regulatory subunit 13 OS=Bos taurus GN=PSMD13 PE=2 SV=1	262.0	[0..3]	[384..4]
gi\|73982052 - gi\|73982052\|ref\|XP_848457.1\| PREDICTED: similar to 26S proteasome non-ATPase regulatory subunit 13 (...	262.0	[0..3]	[384..4]
gi\|157502193, gi... - gi\|3618343\|dbj\|BAA33214.1\| 26S proteasome subunit p40.5 [Homo sapiens], gi\|157502193\|ref\|NP_002808.3...	261.0	[0..3]	[384..4]
gi\|61372825, gi\|... - gi\|61372825\|gb\|AAX43919.1\| proteasome 26S subunit 13 [synthetic construct], gi\|32880133\|gb\|AAP88897....	260.0	[0..3]	[384..4]
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)...	260.0	[0..3]	[386..2]
PSD13_CHICK - 26S proteasome non-ATPase regulatory subunit 13 OS=Gallus gallus GN=PSMD13 PE=1 SV=1	259.0	[0..3]	[384..4]
PSD13_RAT - 26S proteasome non-ATPase regulatory subunit 13 OS=Rattus norvegicus GN=Psmd13 PE=1 SV=1	258.0	[0..3]	[384..4]

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Predicted Domain #1

Region A:
Residues: [1-192]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAALQYLESL KNTHPELGEW YNSLADLYQK KLWHQLTLKL EQFIALAVFQ AGDALIQFYH  60
   61 NFITDFETKI NLLKLAHFAV VVSRQYSEKE AAVSYLESVI EKLRATKEPR ITEPIIYIET 120
  121 QKALFKLEQG DQKECKKILD DGKSSLDSMT DIDPSVYANF YWVSSQYHKC RQEFSDFYKS 180
  181 ALLYLAYTSV ED

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [193-272]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSESFKLDLA FDLSLSALLG ENIYNFGELL AHPILKSLLG TNVEWLYHIL QAFNHGDLVQ  60
   61 YQELCRVHNA SLIAQPALVE

[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	0.663	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.631	d.229.1	Putative cell cycle protein MesJ, middle and C-terminal domain
View	Download	0.589	a.190.1	Description not found.
View	Download	0.581	a.24.28	Description not found.
View	Download	0.511	a.276.1	Description not found.
View	Download	0.495	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.495	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.464	a.144.1	PABC (PABP) domain

Predicted Domain #3

Region A:
Residues: [273-386]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NEKKLLEKIN ILCLIEIIFS RPAEDRTIPL SIIAERTKLS IEDVEHLLMK SLSVHLIEGI  60
   61 IDQVNGTIYV SWAQPRVLGI PQIKALRDQL DSWVDKVHTT LLSVEAETPD LVAA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.522879
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