YRC Public Data Repository - Protein Structure Prediction

Protein:	SDN1_ARATH
Organism:	Arabidopsis thaliana
Length:	409 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 SDN1_ARATH.

Description	E-value	Query Range	Subject Range
DPO3_BACSU - DNA polymerase III polC-type OS=Bacillus subtilis GN=polC PE=1 SV=2 gi\|221318783 - gi\|221318783\|ref\|ZP_03600077.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. JH64... gi\|221313860 - gi\|221313860\|ref\|ZP_03595665.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. NCIB... gi\|221323055 - gi\|221323055\|ref\|ZP_03604349.1\| DNA polymerase III PolC [Bacillus subtilis subsp. subtilis str. SMY] DPO3_BACSU - DNA polymerase III PolC-type OS=Bacillus subtilis (strain 168) GN=polC PE=1 SV=2	295.0	[0..5]	[409..285]
gi\|143342 - gi\|143342\|gb\|AAA22666.1\| polymerase III	291.0	[0..5]	[409..285]
gi\|152976184, gi... - gi\|89203212\|ref\|ZP_01181903.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit...	288.0	[0..4]	[409..281]
gi\|52348140, gi\|... - gi\|52785638\|ref\|YP_091467.1\| DNA polymerase III PolC [Bacillus licheniformis ATCC 14580], gi\|5234814...	287.0	[0..5]	[409..286]
gi\|228660107, gi... - gi\|229123331\|ref\|ZP_04252535.1\| DNA polymerase III polC-type [Bacillus cereus 95/8201], gi\|228660107... gi\|21401801, gi\|... - gi\|65321145\|ref\|ZP_00394104.1\| COG2176: DNA polymerase III, alpha subunit (gram-positive type) [Baci... gi\|228947537, gi... - gi\|228947537\|ref\|ZP_04109827.1\| DNA polymerase III polC-type [Bacillus thuringiensis serovar monterr... gi\|227813274, gi... - gi\|227813274\|ref\|YP_002813283.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus ant... gi\|165872624, gi... - gi\|165872624\|ref\|ZP_02217255.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|170687849, gi... - gi\|170687849\|ref\|ZP_02879063.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|170128318, gi... - gi\|170706900\|ref\|ZP_02897358.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|49180595, gi\|... - gi\|49186668\|ref\|YP_029920.1\| DNA polymerase III PolC [Bacillus anthracis str. Sterne], gi\|49180595\|g... gi\|52141670, gi\|... - gi\|52141670\|ref\|YP_085159.1\| DNA polymerase III PolC [Bacillus cereus E33L], gi\|51975139\|gb\|AAU16689... gi\|30258465, gi\|... - gi\|30263821\|ref\|NP_846198.1\| DNA polymerase III PolC [Bacillus anthracis str. Ames], gi\|30258465\|gb\|... gi\|47504393, gi\|... - gi\|47529245\|ref\|YP_020594.1\| DNA polymerase III PolC [Bacillus anthracis str. 'Ames Ancestor'], gi\|4... gi\|190568456, gi... - gi\|190568456\|ref\|ZP_03021363.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus anth... gi\|196042171, gi... - gi\|196042171\|ref\|ZP_03109454.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cere... gi\|218904946, gi... - gi\|218904946\|ref\|YP_002452780.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cer... gi\|254759330 - gi\|254759330\|ref\|ZP_05211355.1\| DNA polymerase III PolC [Bacillus anthracis str. Australia 94] gi\|254756009 - gi\|254756009\|ref\|ZP_05208040.1\| DNA polymerase III PolC [Bacillus anthracis str. Vollum] gi\|254721996 - gi\|254721996\|ref\|ZP_05183785.1\| DNA polymerase III PolC [Bacillus anthracis str. A1055] gi\|254683475 - gi\|254683475\|ref\|ZP_05147335.1\| DNA polymerase III PolC [Bacillus anthracis str. CNEVA-9066] gi\|229601637, gi... - gi\|229601637\|ref\|YP_002868056.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus ant...	286.0	[0..4]	[409..281]
gi\|49478392, gi\|... - gi\|49478392\|ref\|YP_037879.1\| DNA polymerase III PolC [Bacillus thuringiensis serovar konkukian str. ...	286.0	[0..4]	[409..281]
gi\|75760862, gi\|... - gi\|75760862\|ref\|ZP_00740876.1\| DNA polymerase III alpha subunit [Bacillus thuringiensis serovar isra...	285.0	[0..4]	[409..283]
DPO3_BACCR - DNA polymerase III PolC-type OS=Bacillus cereus (strain ATCC 14579 / DSM 31 / JCM 2152 / NBRC 15305 ... gi\|229146389, gi... - gi\|229146389\|ref\|ZP_04274760.1\| DNA polymerase III polC-type [Bacillus cereus BDRD-ST24], gi\|2286370...	285.0	[0..4]	[409..283]
gi\|47569095, gi\|... - gi\|47569095\|ref\|ZP_00239784.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cereu...	285.0	[0..4]	[409..281]
gi\|89098599, gi\|... - gi\|89098599\|ref\|ZP_01171481.1\| DNA polymerase III subunit alpha [Bacillus sp. NRRL B-14911], gi\|8908...	285.0	[0..5]	[409..289]

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Predicted Domain #1

Region A:
Residues: [1-130]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MELKLATAEK QVLDELVKLL QSRDLRGENG NWKEFLHVYD KNADSPSDPS RRSHEDLVQF  60
   61 LTTFKKKEDL QLLKCHANHL LIENLKQESQ DEDTPEQMLV RLTVEHPSYS LDYSFKPYSE 120
  121 DWFVSDVGMK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [131-319]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKVMESTNM VAVDCEMVLC EDGTEGLVRV GVVDRDLKVI LDEFVKPNKP VVDYRTDITG  60
   61 ITAEDIENAS LSVVDIQETL QPFLSTGTIL VGHSLNRDLE VLKIDHPKVI DTALVFKYPN 120
  121 TRKLRRPSLN NLCKSILGYE VRKTGVPHDC VHDASAAMKL ALAVVEKRVD TTIKPSKEML 180
  181 EVEKAKLFL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.522879
Match:	2p1jA
Description:	No description for 2p1jA was found.

Predicted Domain #3

Region A:
Residues: [320-409]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HKIPNNVPSE ELEQVLSGKF TLDVKQAKTQ GRYYCAFALF HSSEDADQAF EHIDGIEMTD  60
   61 SLGLPQKVVI IKLSSGSRAS IYVRKMVQDE

[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.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.2	NCBI nr	03/2009
PSI-BLAST	2.2.22	FFAS	ffas03
PDB	10/2008	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits