YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|37202026, gi\|...
Organism:	Arabidopsis thaliana
Length:	230 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|37202026, gi|....

Description	E-value	Query Range	Subject Range
gi\|157821329, gi... - gi\|62645964\|ref\|XP_230642.2\| PREDICTED: similar to DNA-directed RNA polymerase III 39 kDa polypeptid...	315.0	[0..3]	[230..132]
gi\|57104040 - gi\|57104040\|ref\|XP_534333.1\| PREDICTED: similar to DNA-directed RNA polymerase III 39 kDa polypeptid...	312.0	[0..3]	[230..77]
gi\|149733397 - gi\|149733397\|ref\|XP_001490686.1\| PREDICTED: similar to polymerase (RNA) III (DNA directed) polypepti... gi\|208967094, gi... - gi\|208967094\|dbj\|BAG73561.1\| polymerase (RNA) III (DNA directed) polypeptide F, 39 kDa [synthetic co... ENSPTRT00000024694 - null POLR3F - polymerase (RNA) III (DNA directed) polypeptide F, 39 kDa	311.0	[0..3]	[230..77]
gi\|114681157 - gi\|114681157\|ref\|XP_001141875.1\| PREDICTED: similar to polymerase (RNA) III (DNA directed) polypepti... gi\|116284007, gi... - gi\|119630646\|gb\|EAX10241.1\| polymerase (RNA) III (DNA directed) polypeptide F, 39 kDa, isoform CRA_c...	311.0	[0..3]	[230..36]
gi\|109093016 - gi\|109093016\|ref\|XP_001089945.1\| PREDICTED: DNA-directed RNA polymerase III 39 kDa polypeptide F iso...	310.0	[0..3]	[230..36]
RPC6_BOVIN - DNA-directed RNA polymerase III subunit RPC6 OS=Bos taurus GN=POLR3F PE=2 SV=1	310.0	[0..3]	[230..77]
gi\|50756109 - gi\|50756109\|ref\|XP_415021.1\| PREDICTED: similar to DNA-directed RNA polymerases III 39 kDa polypepti...	309.0	[0..3]	[230..105]
gi\|26325236 - gi\|26325236\|dbj\|BAC26372.1\| unnamed protein product [Mus musculus]	309.0	[0..3]	[230..77]

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Predicted Domain #1

Region A:
Residues: [1-109]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKRKRPDPK SSGGDLNEPH EKKLLDLIRI NQGRGATMFE LKREKTIPAT IVTRLIASLR  60
   61 KKNLIKEVAN MNNKGVKHYL AMEFEPCSEL TGGEWYTDGA LDLSKIEDL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.221849
Match:	2dk5A
Description:	No description for 2dk5A was found.

Predicted Domain #2

Region A:
Residues: [110-172]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KAKCVMILER HRQRVVTLEV LCGYFVKEEK LSVDQTKEIL KNLILDNLIM EVKSNGMNEF  60
   61 AST

[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	0.530	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.514	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.514	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.458	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.446	d.242.1	Description not found.
View	Download	0.445	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.445	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.430	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.400	a.6.1	Putative DNA-binding domain

Predicted Domain #3

Region A:
Residues: [173-230]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RIGEVCYRLT GKKFGNGEPR AGAFASIPCG VCPHIAICSP DGVISPTTCV YFQKWLDF

[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	0.595	N/A	N/A	a.60.1	SAM/Pointed domain
View	Download	0.365	N/A	N/A	a.60.1	SAM/Pointed domain
View	Download	0.365	N/A	N/A	a.60.1	SAM/Pointed domain
View	Download	0.346	N/A	N/A	a.60.2	RuvA domain 2-like
View	Download	0.334	N/A	N/A	a.60.12	DNA polymerase beta-like, second domain
View	Download	0.286	N/A	N/A	a.60.2	RuvA domain 2-like
View	Download	0.269	N/A	N/A	a.60.12	DNA polymerase beta-like, second domain
View	Download	0.237	N/A	N/A	a.144.2	Ribosomal protein L20
View	Download	0.235	N/A	N/A	a.5.1	DNA helicase RuvA subunit, C-terminal domain

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