YRC Public Data Repository - Protein Structure Prediction

Protein:	NDA8B_ARATH
Organism:	Arabidopsis thaliana
Length:	106 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 NDA8B_ARATH.

Description	E-value	Query Range	Subject Range
NDA8A_ARATH - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8-A OS=Arabidopsis thaliana GN=At3g06310 ...	161.0	[0..2]	[106..4]
gi\|50757139 - gi\|50757139\|ref\|XP_415397.1\| PREDICTED: similar to LIM homeobox protein 6 isoform 1; LIM homeodomain...	150.0	[0..14]	[100..1009]
gi\|114145517, gi... - gi\|33086512\|gb\|AAP92568.1\| Aa2-258 [Rattus norvegicus], gi\|114145517\|ref\|NP_001041327.1\| NADH dehydr...	148.0	[0..14]	[101..38]
gi\|90657586 - gi\|90657586\|gb\|ABD96885.1\| hypothetical protein [Cleome spinosa]	148.0	[0..1]	[105..1]
NDUFA8 - NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 8, 19kDa gi\|111662288 - gi\|111662288\|gb\|ABH12233.1\| mitochondrial complex I subunit NDUFA8 [Gorilla gorilla] NDUA8_PANTR - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Pan troglodytes GN=NDUFA8 PE=2 SV=3 NDUA8_GORGO - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Gorilla gorilla gorilla GN=NDUFA8 PE...	147.0	[0..14]	[101..21]
NDUA8_MOUSE - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Mus musculus GN=Ndufa8 PE=1 SV=3	147.0	[0..14]	[101..21]
NDUA8_PONPY - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Pongo pygmaeus GN=NDUFA8 PE=2 SV=1 NDUA8_PONAB - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Pongo abelii GN=NDUFA8 PE=2 SV=1	147.0	[0..14]	[101..21]
gi\|109110347 - gi\|109110347\|ref\|XP_001089493.1\| PREDICTED: similar to NADH dehydrogenase (ubiquinone) 1 alpha subco...	147.0	[0..14]	[101..21]
NDUA8_BOVIN - NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 OS=Bos taurus GN=NDUFA8 PE=1 SV=2	145.0	[0..14]	[101..21]

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Predicted Domain #1

Region A:
Residues: [1-106]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSAVDATGN PIPTSAVLTA SAKHIGMRCM PENVAFLKCK KNDPNPEKCL DKGRDVTRCV  60
   61 LGLLKDLHQK CQKEMDDYVG CMYYYTNEFD LCRKEQEAFE KVCPLK

[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	0.679	a.24.18	Description not found.
View	Download	0.656	a.29.10	Description not found.
View	Download	0.593	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.593	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.591	a.2.17	Description not found.
View	Download	0.585	a.7.8	GAT domain
View	Download	0.585	a.7.8	GAT domain
View	Download	0.576	a.24.17	Group V grass pollen allergen
View	Download	0.570	a.24.17	Group V grass pollen allergen
View	Download	0.567	a.16.1	S15/NS1 RNA-binding domain
View	Download	0.541	a.7.8	GAT domain
View	Download	0.423	a.23.1	HSC20 (HSCB), C-terminal oligomerisation domain
View	Download	0.403	a.7.8	GAT domain
View	Download	0.342	a.16.1	S15/NS1 RNA-binding 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