YRC Public Data Repository - Protein Structure Prediction

Protein:	SPPA1_ARATH
Organism:	Arabidopsis thaliana
Length:	677 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 SPPA1_ARATH.

Description	E-value	Query Range	Subject Range
gi\|6690270 - gi\|6690270\|gb\|AAF24059.1\|AF114385_1 putative protease SppA [Arabidopsis thaliana]	473.0	[0..1]	[677..1]
gi\|50912359, gi\|... - gi\|50912359\|ref\|XP_467587.1\| putative protease IV [Oryza sativa (japonica cultivar-group)], gi\|46390...	420.0	[0..1]	[675..1]
gi\|126638164, gi... - gi\|78368918\|ref\|ZP_00839110.1\| Peptidase S49, SppA 67 kDa type:Peptidase S49, SppA [Shewanella sp. P...	418.0	[0..79]	[644..7]
gi\|90579232, gi\|... - gi\|90579232\|ref\|ZP_01235042.1\| putative protease IV [Vibrio angustum S14], gi\|90440065\|gb\|EAS65246.1...	414.0	[0..84]	[632..12]
gi\|89073275, gi\|... - gi\|89073275\|ref\|ZP_01159805.1\| putative protease IV [Photobacterium sp. SKA34], gi\|89050985\|gb\|EAR56...	414.0	[0..84]	[632..12]
gi\|169754815, gi... - gi\|170019887\|ref\|YP_001724841.1\| protease 4 [Escherichia coli ATCC 8739], gi\|169754815\|gb\|ACA77514.1... gi\|124529954, gi... - gi\|124529954\|ref\|ZP_01700766.1\| signal peptide peptidase SppA, 67K type [Escherichia coli B], gi\|124... gi\|157161228, gi... - gi\|75195834\|ref\|ZP_00705904.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ...	411.0	[0..90]	[660..13]
gi\|91072557, gi\|... - gi\|91210983\|ref\|YP_540969.1\| protease 4 [Escherichia coli UTI89], gi\|91072557\|gb\|ABE07438.1\| proteas... gi\|110343480, gi... - gi\|110641888\|ref\|YP_669618.1\| protease 4 [Escherichia coli 536], gi\|110343480\|gb\|ABG69717.1\| proteas... gi\|75241359 - gi\|75241359\|ref\|ZP_00725210.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|26248024, gi\|... - gi\|26248024\|ref\|NP_754064.1\| protease 4 [Escherichia coli CFT073], gi\|26108427\|gb\|AAN80629.1\|AE01676... gi\|218699668, gi... - gi\|218699668\|ref\|YP_002407297.1\| protease 4 [Escherichia coli IAI39], gi\|218369654\|emb\|CAR17423.1\| p... gi\|215265054, gi... - gi\|215486982\|ref\|YP_002329413.1\| protease 4 [Escherichia coli O127:H6 str. E2348/69], gi\|215265054\|e...	410.0	[0..90]	[660..13]
gi\|188493917, gi... - gi\|75513738\|ref\|ZP_00736114.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ...	410.0	[0..90]	[660..13]
gi\|117623937, gi... - gi\|117623937\|ref\|YP_852850.1\| protease 4 [Escherichia coli APEC O1], gi\|115513061\|gb\|ABJ01136.1\| pro... gi\|218365403, gi... - gi\|218558634\|ref\|YP_002391547.1\| protease 4 [Escherichia coli S88], gi\|218365403\|emb\|CAR03126.1\| pro... gi\|226900474, gi... - gi\|237705717\|ref\|ZP_04536198.1\| protease IV [Escherichia sp. 3_2_53FAA], gi\|226900474\|gb\|EEH86733.1\|...	410.0	[0..90]	[660..13]
gi\|209768378 - gi\|209768378\|gb\|ACI82501.1\| protease IV [Escherichia coli] gi\|75256166 - gi\|75256166\|ref\|ZP_00727862.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|75210251, gi\|... - gi\|75210251\|ref\|ZP_00710419.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|75177306, gi\|... - gi\|75177306\|ref\|ZP_00697395.1\| COG0616: Periplasmic serine proteases (ClpP class) [Shigella boydii B... gi\|194433484, gi... - gi\|83569627\|ref\|ZP_00921078.1\| COG0616: Periplasmic serine proteases (ClpP class) [Shigella dysenter...	409.0	[0..90]	[660..13]

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Predicted Domain #1

Region A:
Residues: [1-77]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKLLLLHAP HVIPRFSSSS SRSLVSAAAL YRRPLLVNPQ FSHIGPRLHS PYNRRFSARA  60
   61 FDDSPASSAE MEKEKQE

[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	0.477	a.48.4	Description not found.
View	Download	0.476	a.4.1	Homeodomain-like
View	Download	0.476	a.4.1	Homeodomain-like
View	Download	0.444	a.4.1	Homeodomain-like
View	Download	0.440	a.61.1	Retroviral matrix proteins
View	Download	0.416	a.65.1	Annexin
View	Download	0.416	a.65.1	Annexin
View	Download	0.397	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.392	a.144.2	Ribosomal protein L20
View	Download	0.227	a.4.1	Homeodomain-like

Predicted Domain #2

Region A:
Residues: [78-299]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QLLDGVSGKK DEDYPTGEME YENRNAWEIF VVKFRMLFAY PWQRVRKGSV LTMTLRGQIS  60
   61 DQLKSRFNSG LSLPQLSENF VKAAYDPRIA GVYLHIDPLS CGWGKVEEIR RHILNFKKSG 120
  121 KFIVGYISIC GLKEYYLGCA CNELFAPPSA YSFLYGLTVQ ASFLGGVFEK VGIEPQVQRI 180
  181 GKYKSAGDQL SRKSISEENY EMLSVLLDNI YSNWLDGVSD AT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.221849
Match:	1uiyA
Description:	Crystal Structure of Enoyl-CoA Hydratase from Thermus Thermophilus HB8
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [300-352]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKKREDVENF INQGVYEIEK LKEAGLIKDI RYDDEVITML KERLGVEKDK KLP

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.12
Match:	2cbyA
Description:	Crystal structure of the ATP-dependent Clp Protease proteolytic subunit 1 (ClpP1) from Mycobacterium tuberculosis
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [353-580]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TVDYKKYSGV KKWTLGLTGG RDQIAIIRAG GSISRVKGPL STPGSAIIAE QLIEKIRSVR  60
   61 ESKKYKAAII RIDSPGGDAL ASDLMWREIK LLAETKPVIA SMSDVAASGG YYMAMAANAI 120
  121 VAENLTLTGS IGVVTARFTL AKLYEKIGFN KETISRGKYA ELLGAEERPL KPEEAELFEK 180
  181 SAQHAYQLFR DKAALSRSMP VDKMEEVAQG RVWTGKDAHS RGLIDAVG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.69897
Match:	1tyfA
Description:	Clp protease, ClpP subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [581-677]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GLSRAIAIAK QKANIPLNKK VTLVELSRPS TSLPDILSGI GSSVIGVDRT LKGLLDELTI  60
   61 TEGVQARMDG IMFQQLGRDS LATPIIDMLK DYLSSLR

[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	0.880	a.152.1	Antioxidant defence protein AhpD
View	Download	0.832	a.152.1	Antioxidant defence protein AhpD
View	Download	0.791	a.152.1	Antioxidant defence protein AhpD
View	Download	0.714	a.24.17	Group V grass pollen allergen
View	Download	0.714	a.24.17	Group V grass pollen allergen
View	Download	0.671	a.152.1	Antioxidant defence protein AhpD
View	Download	0.616	a.118.1	ARM repeat
View	Download	0.589	a.24.17	Group V grass pollen allergen
View	Download	0.571	a.118.13	Arp2/3 complex 16 kDa subunit ARPC5
View	Download	0.538	a.4.12	TrpR-like
View	Download	0.478	a.165.1	Myosin phosphatase inhibitor 17kDa protein, CPI-17
View	Download	0.389	a.7.8	GAT domain
View	Download	0.374	a.7.8	GAT domain
View	Download	0.353	d.52.8	Description not found.

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