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(?) Enter a search word or phrase (left box), optionally select an appropriate field (middle), and hit the search button or press enter. This search engine is NOT case sensitive.

Use wild characters " ? " and " * " for efficient search:
  • ? : A single character. E.g., trehalose?phosphatase covers both trehalose phosphatase and trehalose-phosphatase, of which, only the latter fits the nomenclature used in this database.
  • * : Any number of characters. E.g.,tre-* brings all genes from trehalase family; coenzyme*A covers coenzyme A, coenzyme-A, and coenzymeA.
Network Biomass
FBA FVA Integrate expression
Gene Overview
Name ..................................................... : acdh-2
Sequence ID ..................................................... : C17C3.12
Status (?) Can be one of the following two: Curated (manually annotated or based on a curated SACURE result), or Not curated (SACURE result reported without manual check). ..................................................... : Curated
KO (?) The KEGG orthology group (KO) that is associated with this gene. ..................................................... : K09478ACADSB; short/branched chain acyl-CoA dehydrogenase [EC:1.3.99.12]
Enzymes in the model (?) Enzymes that are part of the current metabolic network model. ..................................................... : 1.3.99.12names: 2-methylacyl-CoA dehydrogenase;branched-chain acyl-CoA dehydrogenase;2-methyl branched chain acyl-CoA dehydrogenase;2-methylbutanoyl-CoA:(acceptor) oxidoreductase
Other enzymes (?) Enzymes that are associated with this gene in the WormFlux database, but not included in the current network model. ..................................................... :
Model reactions (?) Reactions that are part of the current metabolic network model.

See the bottom of this page for a table of reactions.
.....................................................
: RM01175, RM04432, RM03777, RM03172, RM02661, RM04751
Relevant model reactions (?) Model reactions that follow from the KEGG reactions associated with this gene, but that exclude this gene due to differences in reaction specificity or localization compared to the predictions for this gene. ..................................................... : ERROR
Other reactions (?) KEGG reactions that are associated with this gene in the WormFlux database, but not included in the current network model. ..................................................... : None
► | Gene-KO-Enzyme-Reaction Associations (click to view)▼ | Gene-KO-Enzyme-Reaction Associations (click to hide)
► | SACURE Summary (click to view)▼ | SACURE scores (click to hide)

Score table (?) Association scores for KOs best matching to the query gene according to each annotation predictor, and for the accepted KO if there is any (rightmost columns).

The predictors are ordered in decreasing weight of contribution to the decision-making process in SACURE.

See above for the final decision on the annotation of this gene.

Predictor Best scoring KOs Best score K09478 ERROR
KEGG (?) Score represents the annotation in KEGG database by June 2014.

Takes a value of either 0 (KO is not associated with the query gene) or 1 (KO is associated with the query gene).
Not applicable 0 0 ERROR
Cluster (?) Score represents the degree of relatedness of a KO to the query gene based on the clustering in the phylogenetic tree of protein sequences (see below for the tree).

Takes values from 0 to 1.
K09478 0.51 0.51 ERROR
myKEGG (?) Score represents the degree of relatedness of a KO to the query gene based on the Smith-Waterman alignment of protein sequence with most similar sequences from all organisms in the KEGG database.

Takes values from 0 to 1.

KOunknown indicates the score for sequences without any KO association in KEGG database.
K09478 0.20 0.20 ERROR
Tree (?) Score shows the degree of relatedness of a KO to the query gene based on the density of this KO in the phylogenetic tree of protein sequences (see below for the tree).

Takes values from 0 to 2 as the score is normalized to the second best KO.

KOunknown indicates the score for sequences without any KO association in KEGG database.
K09478 1.66 1.66 ERROR
KOG (?) Score indicates the absence or presence of a KO in association with one of the orthologs of the query gene according to a eukaryotic orthology database independent of KEGG (see HELP in the upper menu for details).

Takes a value of either 0 (absent) or 1 (present).
Not applicable 0 0 ERROR
WormBase (?) Score represents matching between the KEGG descriptions of a KO (KO name and all related enzyme names) and the descriptions of the query gene in WormBase (gene overview and protein domains).

Value is increased by 0.5 for every perfect word match and reduced by 0.1 for each character interruption. A non-matching word always creates a 0 score.

WormBase description used for this gene was:

"Acyl-CoA dehydrogenase, conserved site $ Acyl-CoA dehydrogenase, C-terminal $ Acyl-CoA dehydrogenase, middle $ Acyl-CoA dehydrogenase, N-terminal $ Acyl-CoA dehydrogenase, type 2, C-terminal $ Acyl-CoA dehydrogenase/oxidase, N-terminal $ Acyl-CoA oxidase/dehydrogenase, central $ Acyl-CoA oxidase/dehydrogenase, type 1 $ Acyl-CoA oxidase/dehydrogenase, type1/2, C-terminal $$ acdh-2 encodes a short-chain acyl-CoA dehydrogenase; ACDH-2 is predicted to be a mitochondrial enzyme that catalyzes the first step of fatty acid beta-oxidation and thus plays a key role in energy production; steady-state acdh-2 mRNA levels are under the control of the MDT-15 mediator complex subunit; in addition, gene expression studies indicate that acdh-2 expression is downregulated in fasted animals; loss of acdh-2 activity via large-scale RNAi experiments does not result in any obvious defects."
K17829 K00248 2.5 0.0 ERROR
Overall (?) Overall score from SACURE that represents the logistic-regression-based probability of acceptance of a KO in association with the query gene. K09478 0.316 0.316 ERROR
► | Localization scores (click to view)▼ | Localization scores (click to hide)

Score table (?) Localization scores for proteins encoded by the query gene.

Each predictor is used to determine whether the protein is localized to mitochondria or other compartment.

Together with other genes and other predictors, these scores were used in the determination of the subcellular location of reactions associated with the query gene (see below for the reactions).

Predictor Mitochondrial Other
Mitoprot (?) Score represents the predicted probability that the protein is targeted to mitochondria (mitochondrial score) or not (other score) according to Mitoprot (click to reach).

If multiple isofoms of the same protein are available the highest scores are shown for each compartment.
0.65 0.91
MitoMiner (?) Score evaluates the evidence for mitochondrial targeting based on the orthologs in 12 eukaryotic model organisms that are in the MitoMiner database (click to reach).

If clear orthologs for the query gene are available in MitoMiner organisms, the score takes a value between 0 and 1 as a function of the ratio of orthologs that have hits (contributes to the mitochondrial score) or no hits (determines the other score) in the database. Mitochondrial score is also a function of the strength of the evidence for the orthologs found in the database (experimental evidence is given a higher weight than theoretical evidence during scoring).
Not available Not available
UniProt (?) Score shows the subcellular localization of proteins encoded by this gene as reported in UniProt (click to reach) in October 2014.

If a report is available, the score takes a value of either 0 (not reported to be localized to the pertaining compartment) or 1 (reported to be localized to the pertaining compartment).
Not available Not available
Org. DB (?) Score shows the subcellular localization of proteins encoded by this gene as reported in Organelle Database (click to reach).

If a report is available, the score takes a value of either 0 (not reported to be localized to the pertaining compartment) or 1 (reported to be localized to the pertaining compartment).
Not available Not available
► | Phylogenetic tree (click to view)▼ | Phylogenetic tree (click to hide)
K09478 VER:ola 101163855 (B) K09478 INV:bfo BRAFLDRAFT_74917 (B) K09478 HSA:hsa ACADSB (B) K09478 MAM:cge Acadsb (B) K09478 ART:aag AaeL_AAEL007555 (B) K09478 DME:dme Dmel_CG3902 (B) K09478 CEL:cel acdh-3 (PB) K00257 CEL:cel acdh-4 (P) KOunknown CEL:cel acdh-1 (PB) K00257 FUN:yli YALI0D15708g (B) K09478 PRO:pif PITG_06732 (B) K09478 NEM:tsp Tsp_04649 (B) KO-TBD CEL:cel acdh-2 (SUBJECT) K09478 PLA:cme CYME_CML080C (B) K00249 CEL:cel acdh-8 (P) K00249 CEL:cel acdh-7 (P) 0.1
Sequence labels indicate KO, taxonomy or model organism, organism name (if taxonomic group), and gene name, respectively. CEL, C. elegans; HSA, H. sapiens; DME, D. melanogaster; ATH, A. thaliana; SCE, S. cerevisiae; BAC, bacteria; ARC, archaea; PRO, protists; FUN, fungi; PLA, plants; INV, invertebrates; NEM, nematodes; ART, arthropods; VER, vertebrates; MAM, mammals. Parenthetical information for organisms other than CEL indicates whether the genes are introduced as best matches (B) or reciprocal best hits (R) to the query gene. Parenthetical information for CEL indicates whether the genes are introduced as paralogues (P) of the query gene or as reciprocal best matches to one of the other organisms in the tree (B). Organism abbreviations are from KEGG.
Reactions
ID Enzyme Reactants Products Genes (?) Multiple genes are separated by OR (I) or AND (&).

I indicates that genes are redundant within the group (e.g. paralogs encoding the same enzyme).
& indicates that genes are non-redundant within the group (e.g. genes encoding different subunits of the same enzyme).

If there are multiple groups of genes, as in an enzyme complex with some enzymes associated with multiple genes, or in a case where the same enzyme is associated with different orthology groups with paralogs, each group with multiple genes is shown in parentheses.
Pathway
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