YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|238480047, gi...
Organism:	Arabidopsis thaliana
Length:	365 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 gi|238480047, gi....

Description	E-value	Query Range	Subject Range
gi\|109946597, gi... - gi\|42565846\|ref\|NP_190773.2\| 5'-3' exonuclease family protein [Arabidopsis thaliana], gi\|145362483\|r...	352.0	[0..24]	[365..1]
gi\|90420752, gi\|... - gi\|90420752\|ref\|ZP_01228658.1\| DNA polymerase I [Aurantimonas sp. SI85-9A1], gi\|90335043\|gb\|EAS48804... gi\|90420752, gi\|... - gi\|90420752\|ref\|ZP_01228658.1\| DNA polymerase I [Aurantimonas sp. SI85-9A1], gi\|90335043\|gb\|EAS48804...	272.0	[0..113]	[365..1]
gi\|114705617, gi... - gi\|114705617\|ref\|ZP_01438520.1\| DNA polymerase I [Fulvimarina pelagi HTCC2506], gi\|114538463\|gb\|EAU4...	271.0	[0..113]	[365..1]
gi\|38146965 - gi\|38146965\|gb\|AAR11867.1\| DNA polymerase I [Bacillus caldolyticus]	270.0	[0..113]	[363..1]
gi\|15615715, gi\|... - gi\|15615715\|ref\|NP_244019.1\| DNA polymerase I [Bacillus halodurans C-125], gi\|10175775\|dbj\|BAB06872.... gi\|25288528 - pir\|\|A84044 DNA polymerase I polA [imported] - Bacillus halodurans (strain C-125)	270.0	[0..117]	[365..2]
gi\|56421265, gi\|... - gi\|56421265\|ref\|YP_148583.1\| DNA polymerase I [Geobacillus kaustophilus HTA426], gi\|56381107\|dbj\|BAD...	269.0	[0..113]	[363..1]
gi\|114322007, gi... - gi\|78702619\|ref\|ZP_00867050.1\| DNA polymerase A [Alkalilimnicola ehrlichei MLHE-1], gi\|78519889\|gb\|E...	269.0	[0..113]	[365..2]
gi\|115424490\|dbj... - DNA polymerase I [Alicyclobacillus acidocaldarius subsp. acidocaldarius] gi\|115424490 - gi\|115424490\|dbj\|BAF33373.1\| DNA polymerase I [Alicyclobacillus acidocaldarius subsp. acidocaldarius...	268.0	[0..118]	[365..63]
DPO1_BACCA - DNA polymerase I OS=Bacillus caldotenax GN=polA PE=1 SV=1	268.0	[0..116]	[363..2]

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Predicted Domain #1

Region A:
Residues: [1-116]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVNVFPPLRL NALLLHDSTF SDVMTLHLYH HSRFLWRNLC FPRSVGNLCN RNCSLISPSL  60
   61 ARSAKYYCSS VAVSEFSNEA ASGSTLTSIS EDVTPQSIKY PFKSEERVAS TAASSN

[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.

Predicted Domain #2

Region A:
Residues: [117-365]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GRVMLIDGTS IIYRAYYKLL ARLNHGHLAH ADGNADWVLT IFSSLSLLID VLKFLPSHVA  60
   61 VVFDHDGMNF RHTLYPAYKS NRPPTPDTIV QGLQYLKASI KAMSIKVIEV PGVEADDVIG 120
  121 TLAMRSISAG FKVRVVSPDK DFFQILSPSL RLLRLTPRGS EMASFGMEDF AKKFGNLEPA 180
  181 QFVDIIALAG DKSDNIPGVD GIGNVHAVEL ISRFGTLENL LQSVDEIKEG KIKEVSEQVL 240
  241 QRLGKLVLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.154902
Match:	1bgxT
Description:	5' to 3' exonuclease domain of DNA polymerase Taq; Exonuclease domain of prokaryotic DNA polymerase; DNA polymerase I (Klenow fragment)
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