YRC Public Data Repository - Protein Structure Prediction

Protein:	NU3M_RAT
Organism:	Rattus norvegicus
Length:	115 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 NU3M_RAT.

Description	E-value	Query Range	Subject Range
gi\|21622587 - gi\|21622587\|emb\|CAD21712.2\| cytochrome oxidase III [Odobenus rosmarus rosmarus]	145.0	[0..1]	[115..286]
gi\|88910855 - gi\|88910855\|gb\|ABD58734.1\| NADH dehydrogenase subunit 3 [Catharacta skua]	145.0	[0..1]	[115..1]
NU3M_CARAU - NADH-ubiquinone oxidoreductase chain 3 OS=Carassius auratus GN=MT-ND3 PE=3 SV=1	144.0	[0..1]	[115..1]
gi\|108767332, gi... - gi\|108767332\|ref\|YP_636051.1\| NADH dehydrogenase subunit 3 [Gila robusta], gi\|105873577\|gb\|ABF74807....	144.0	[0..1]	[115..1]
NU3M_CYPCA - NADH-ubiquinone oxidoreductase chain 3 OS=Cyprinus carpio GN=MT-ND3 PE=3 SV=1	144.0	[0..1]	[115..1]
gi\|89212930 - gi\|89212930\|gb\|ABD63935.1\| NADH dehydrogenase subunit 3 [Xanthomixis cinereiceps]	144.0	[0..1]	[115..1]
gi\|56912175, gi\|... - gi\|56912175\|ref\|YP_173343.1\| NADH dehydrogenase subunit 3 [Carassius auratus auratus], gi\|56798136\|d... gi\|251765224, gi... - gi\|254033653\|ref\|YP_003058372.1\| NADH dehydrogenase subunit 3 [natural gynogenetic Carassius auratus... gi\|52221018, gi\|... - gi\|52221018\|ref\|YP_087038.1\| NADH dehydrogenase subunit 3 [Carassius carassius], gi\|51339769\|gb\|AAU0... gi\|51235012, gi\|... - gi\|51235012\|ref\|YP_063502.1\| NADH dehydrogenase subunit 3 [Carassius auratus x Cyprinus carpio], gi\|... gi\|54288027, gi\|... - gi\|55338286\|ref\|YP_133900.1\| NADH dehydrogenase subunit 3 [Carassius auratus x Cyprinus carpio x Car...	143.0	[0..1]	[115..1]
gi\|78057591, gi\|... - gi\|78057591\|gb\|ABB17289.1\| NADH dehydrogenase subunit 3 [Hemibarbus mylodon], gi\|194277552\|ref\|YP_49...	143.0	[0..1]	[115..1]
gi\|84372109, gi\|... - gi\|86990369\|ref\|YP_492601.1\| NADH dehydrogenase subunit 3 [Hemibarbus labeo], gi\|84372109\|gb\|ABC5640... gi\|119360379, gi... - gi\|119360379\|ref\|YP_913283.1\| NADH dehydrogenase subunit 3 [Hemibarbus barbus], gi\|119224961\|dbj\|BAF...	143.0	[0..1]	[115..1]
gi\|37361564 - gi\|37361564\|gb\|AAQ91100.1\| NADH dehydrogenase subunit 3 [Acanthisitta chloris]	143.0	[0..1]	[115..1]

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Predicted Domain #1

Region A:
Residues: [1-115]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNLPIIITIN ITLSFILISI AFWLPQMNLY SEKANPYECG FDPTSSARLP FSMKFFLVAI  60
   61 TFLLFDLEIA LLLPLPWAIQ TTNTTTMMAT AFILVTILSL GLAYEWTQKG LEWTE

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.08
Match:	1occD
Description:	Mitochondrial cytochrome c oxidase subunit IV
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity	0.886595091057568	bayes_pls_golite062009
binding	0.471286748048633	bayes_pls_golite062009
protein binding	0.0277911089352154	bayes_pls_golite062009

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

Predicted functions: