YRC Public Data Repository - Protein Structure Prediction

Protein:	NDI1
Organism:	Saccharomyces cerevisiae
Length:	513 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 NDI1.

Description	E-value	Query Range	Subject Range
NDI1 - NADH:ubiquinone oxidoreductase, transfers electrons from NADH to ubiquinone in the respiratory chain... NDI1_YEAST - Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial OS=Saccharomyces cerevisiae (stra...	0.0	[1..513]	[1..513]
NDH1_SCHPO - Probable NADH-ubiquinone oxidoreductase C3A11.07, mitochondrial OS=Schizosaccharomyces pombe (strain... SPAC3A11.07 - NADH dehydrogenase	0.0	[8..510]	[43..549]
NDA2_ARATH - Internal alternative NAD(P)H-ubiquinone oxidoreductase A2, mitochondrial OS=Arabidopsis thaliana GN=...	1.0E-99	[7..511]	[21..507]
gi\|3718005, gi\|4... - gi\|49651726\|emb\|CAG78667.1\| YALI0F25135p [Yarrowia lipolytica], gi\|3718005\|emb\|CAA07265.1\| alternati... NDH2_YARLI - External alternative NADH-ubiquinone oxidoreductase, mitochondrial OS=Yarrowia lipolytica (strain CL...	2.0E-98	[43..511]	[102..581]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	9.0E-98	[22..481]	[6..440]
DLDH_PEA - Dihydrolipoyl dehydrogenase, mitochondrial OS=Pisum sativum GN=LPD PE=1 SV=2	5.0E-97	[22..481]	[6..440]

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Predicted Domain #1

Region A:
Residues: [1-179]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLSKNLYSNK RLLTSTNTLV RFASTRSTGV ENSGAGPTSF KTMKVIDPQH SDKPNVLILG  60
   61 SGWGAISFLK HIDTKKYNVS IISPRSYFLF TPLLPSAPVG TVDEKSIIEP IVNFALKKKG 120
  121 NVTYYEAEAT SINPDRNTVT IKSLSAVSQL YQPENHLGLH QAEPAEIKYD YLISAVGAE

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [341-513]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NKARPVITDL FKKIPEQNSS KRGLAVNDFL QVKGSNNIFA IGDNAFAGLP PTAQVAHQEA  60
   61 EYLAKNFDKM AQIPNFQKNL SSRKDKIDLL FEENNFKPFK YNDLGALAYL GSERAIATIR 120
  121 SGKRTFYTGG GLMTFYLWRI LYLSMILSAR SRLKVFFDWI KLAFFKRDFF KGL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	101.0
Match:	1lvl__
Description:	Dihydrolipoamide dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on NADH or NADPH	6.80483427531026	bayes_pls_golite062009
oxidoreductase activity	4.24087829378489	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	2.57282017498189	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	2.50603438449246	bayes_pls_golite062009
cation transmembrane transporter activity	2.3998060954585	bayes_pls_golite062009
ion transmembrane transporter activity	2.35426029070392	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.28982462439281	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.19095357354283	bayes_pls_golite062009
substrate-specific transporter activity	2.17217047087399	bayes_pls_golite062009
dihydrolipoyl dehydrogenase activity	1.6187224316494	bayes_pls_golite062009
oxygen-dependent protoporphyrinogen oxidase activity	1.59912481901166	bayes_pls_golite062009
catalytic activity	1.56773888754354	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	1.45104542724719	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	1.31328088143083	bayes_pls_golite062009
protein binding	1.16738144711505	bayes_pls_golite062009
binding	0.993436593091194	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	0.7227919966299	bayes_pls_golite062009
coenzyme binding	0.146916113354806	bayes_pls_golite062009
succinate dehydrogenase activity	0.110826254138262	bayes_pls_golite062009
cofactor binding	0.0578189575854124	bayes_pls_golite062009
NADPH-adrenodoxin reductase activity	0.0194702205549504	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [180-340]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PNTFGIPGVT DYGHFLKEIP NSLEIRRTFA ANLEKANLLP KGDPERRRLL SIVVVGGGPT  60
   61 GVEAAGELQD YVHQDLRKFL PALAEEVQIH LVEALPIVLN MFEKKLSSYA QSHLENTSIK 120
  121 VHLRTAVAKV EEKQLLAKTK HEDGKITEET IPYGTLIWAT G

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	101.0
Match:	1lvl__
Description:	Dihydrolipoamide dehydrogenase
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

Predicted functions: