YRC Public Data Repository - Protein Structure Prediction

Protein:	NDH1_SCHPO
Organism:	Schizosaccharomyces pombe 972h-
Length:	551 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 NDH1_SCHPO.

Description	E-value	Query Range	Subject Range
gi\|71062053, gi\|... - gi\|71082940\|ref\|YP_265659.1\| dihydrolipoyl dehydrogenase [Candidatus Pelagibacter ubique HTCC1062], ...	258.0	[0..88]	[549..1]
gi\|91762636, gi\|... - gi\|91762636\|ref\|ZP_01264601.1\| Dihydrolipoyl dehydrogenase [Candidatus Pelagibacter ubique HTCC1002]...	256.0	[0..88]	[549..1]
gi\|2995415 - gi\|2995415\|emb\|CAA70224.1\| mercuric reductase [Bacillus cereus]	253.0	[0..13]	[543..8]
RPA2863 - RPA2863 dihydrolipoamide dehydrogenase, E3 Component of Pyruvate dehydrogenase multienzyme complex 3...	251.0	[0..88]	[551..2]
gi\|86749883, gi\|... - gi\|86749883\|ref\|YP_486379.1\| dihydrolipoamide dehydrogenase [Rhodopseudomonas palustris HaA2], gi\|86...	251.0	[0..90]	[551..4]
gi\|11071709 - gi\|11071709\|emb\|CAC14663.1\| mercuric reductase [Bacillus licheniformis]	250.0	[0..13]	[539..8]
gi\|32421857, gi\|... - gi\|32421857\|ref\|XP_331372.1\| hypothetical protein [Neurospora crassa], gi\|28920404\|gb\|EAA29772.1\| hy... gi\|85091656 - gi\|85091656\|ref\|XP_959008.1\| hypothetical protein NCU11397 [Neurospora crassa OR74A]	248.0	[0..4]	[550..26]
gi\|56964182, gi\|... - gi\|56964182\|ref\|YP_175913.1\| dihydrolipoamide dehydrogenase [Bacillus clausii KSM-K16], gi\|56910425\|...	247.0	[0..89]	[543..7]
gi\|25284909 - pir\|\|D83981 pyruvate dehydrogenase E3 (dihydrolipoamide dehydrogenase) pdhD [imported] - Bacillus ha... gi\|10175273, gi\|... - gi\|15615215\|ref\|NP_243518.1\| dihydrolipoamide dehydrogenase [Bacillus halodurans C-125], gi\|10175273...	247.0	[0..89]	[543..7]
gi\|77742406, gi\|... - gi\|77742406\|ref\|ZP_00810884.1\| Dihydrolipoamide dehydrogenase [Rhodopseudomonas palustris BisA53], g...	247.0	[0..88]	[551..2]

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Predicted Domain #1

Region A:
Residues: [1-87]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLFSRSILRG MPKAGIPKSP LALSASRNLR LANSVRFASD AASSPKSTTS KWKILKRTTL  60
   61 GLFATAVVLY GANVYRFRHP DPHQPLP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	33.0
Match:	1hyuA
Description:	Alkyl hydroperoxide reductase subunit F (AhpF), C-terminal domains; Alkyl hydroperoxide reductase subunit F (AhpF), N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [88-551]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPSKKTLVVL GAGWGATSIL RTIDTSLFNV IVVSPRNYFL FTSLLPSTAT GSVHTRSIVQ  60
   61 PIRYMLRHKS CYVKFYEAEC TDVDADKKVI HIKKTTTDGV DLEQEIKYDY LVCSHGAETQ 120
  121 TFNIPGIAEY GCFLKEIWDA QKIRARILHC LEQAQFKDLP AETRRRYVHT VVVGGGPTGM 180
  181 EFAGEMADFI EDDLKSWYPE LADDFAVTLV EALPSVLPMF SAKLRDYTQS LFDSSHIKIR 240
  241 TNTALKKVTA ENIHVEVKNP DGSKQEEVIP YGLLVWAGGN RARPLTKKLM EGSEEQNNRR 300
  301 GLVVDEYLKL KGYKDIFALG DCTHTAYAPT AQVASQQGAY LGQLFNKLGS LNFEKPSEDR 360
  361 HIALGDEMDS STLISLANEK HASTKVFLPF KYSHQGSLAY VGHEKAIADI EVPWFGKQLH 420
  421 ASGALAFYFW RSVYLSELYS LRNRTNVTLD WIRVKLFGRD ISSL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.69897
Match:	1ebdA
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
NADH dehydrogenase activity	4.48519830611958	bayes_pls_golite062009
oxidoreductase activity	4.24087829378489	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	3.11137503143637	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	3.04960158864768	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.87261684242536	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
transporter activity	1.29839290134235	bayes_pls_golite062009
protein binding	1.16738144711505	bayes_pls_golite062009
transmembrane transporter activity	1.07862908893913	bayes_pls_golite062009
binding	0.993436593091194	bayes_pls_golite062009
substrate-specific transporter activity	0.556967966402473	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	0.36771673037999	bayes_pls_golite062009
glutathione-disulfide reductase activity	0.33334782799369	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.31459693204333	bayes_pls_golite062009
lipoamide binding	0.193025676337591	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor	0.18455498413733	bayes_pls_golite062009
coenzyme binding	0.146916113354806	bayes_pls_golite062009
cofactor binding	0.0578189575854124	bayes_pls_golite062009
NADPH-adrenodoxin reductase activity	0.0194702205549504	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: