YRC Public Data Repository - Protein Structure Prediction

Protein:	SDN2_ARATH
Organism:	Arabidopsis thaliana
Length:	466 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 SDN2_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	305.0	[0..15]	[462..296]
gi\|143342 - gi\|143342\|gb\|AAA22666.1\| polymerase III	301.0	[0..15]	[462..296]
gi\|152976184, gi... - gi\|89203212\|ref\|ZP_01181903.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit...	300.0	[0..15]	[462..293]
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...	297.0	[0..15]	[462..293]
gi\|49478392, gi\|... - gi\|49478392\|ref\|YP_037879.1\| DNA polymerase III PolC [Bacillus thuringiensis serovar konkukian str. ...	297.0	[0..15]	[462..293]
gi\|89098599, gi\|... - gi\|89098599\|ref\|ZP_01171481.1\| DNA polymerase III subunit alpha [Bacillus sp. NRRL B-14911], gi\|8908...	296.0	[0..3]	[462..282]
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...	296.0	[0..15]	[462..295]
gi\|163863752, gi... - gi\|89208601\|ref\|ZP_01187099.1\| DNA polymerase III, epsilon subunit:DNA polymerase III, alpha subunit...	295.0	[0..15]	[462..293]
gi\|75760862, gi\|... - gi\|75760862\|ref\|ZP_00740876.1\| DNA polymerase III alpha subunit [Bacillus thuringiensis serovar isra...	295.0	[0..15]	[462..295]
gi\|47569095, gi\|... - gi\|47569095\|ref\|ZP_00239784.1\| DNA polymerase III, alpha subunit, Gram-positive type [Bacillus cereu...	295.0	[0..15]	[462..293]

Back

Predicted Domain #1

Region A:
Residues: [1-135]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEDVLATAEG VVLVKLVKVA QKLGLKGENG TWKEFLDFYD KQLGSSSLSD PSKRRKDDLV  60
   61 AFLTTLKKKE DLQLLAKSLK LDNDVFEKFK KKSLDETAEQ RLVRMTLTHD EYPLDYLFPS 120
  121 NAEDWVRTGL GKKKM

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.499	N/A	N/A	a.73.1	Retrovirus capsid protein, N-terminal core domain
View	Download	0.372	N/A	N/A	a.78.1	Fatty acid responsive transcription factor FadR, C-terminal domain
View	Download	0.372	N/A	N/A	a.78.1	Fatty acid responsive transcription factor FadR, C-terminal domain
View	Download	0.366	N/A	N/A	c.20.1	Initiation factor IF2/eIF5b, domain 3
View	Download	0.363	N/A	N/A	a.146.1	Telomeric repeat binding factor (TRF) dimerisation domain
View	Download	0.363	N/A	N/A	a.146.1	Telomeric repeat binding factor (TRF) dimerisation domain
View	Download	0.332	N/A	N/A	a.133.1	Phospholipase A2, PLA2
View	Download	0.332	N/A	N/A	a.133.1	Phospholipase A2, PLA2
View	Download	0.297	N/A	N/A	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.284	N/A	N/A	a.25.1	Ferritin-like

Predicted Domain #2

Region A:
Residues: [136-326]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EPTKIEMIAI DCEMVLCEDG SEAVVRVAAV DRDLKVILDE FVKPNQPVVD YRTFITGLTA  60
   61 QDLEKATISV VDIQEKLLMF ISEDTILVGQ SLNHDLKVLK VDHARVIDTS LVFKYNYDGT 120
  121 RRPLRLKRPS LNYLCKCILG YEVQKEGVPH NCVHDAEAAM KLVLAILDNG AETSVPLSKE 180
  181 MLEAEKSKLY L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.0
Match:	1wljA
Description:	human ISG20
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [327-466]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HRIPCNVPYE ELNGVVSRDI PHEVKPSKKQ DRHYYSAIVV FKSPEEANQA FENIAGDFGK  60
   61 DSRGLSQKQI FLEPSSSEPR LYVLVRKMVE DDLVGEVIAE ENNASSKKRK RENHSKGTRD 120
  121 RRRCKPLSRR KQRSNVKRRR

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.967
Match:	1fnxH
Description:	Hu antigen C (Huc)
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