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CHEBI ONTOLOGY - ANNOTATIONS

The Chemical Entities of Biological Interest (ChEBI) ontology is downloaded weekly from EMBL-EBI at http://www.ebi.ac.uk/chebi/. The data is made available under the Creative Commons License (CC BY 3.0, http://creativecommons.org/licenses/by/3.0/). For more information see: Degtyarenko et al. (2008) ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Res. 36, D344–D350.

Term:spermidine
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Accession:CHEBI:16610 term browser browse the term
Definition:A triamine that is the 1,5,10-triaza derivative of decane.
Synonyms:related_synonym: 1,5,10-triazadecane;   4-azaoctamethylenediamine;   4-azaoctane-1,8-diamine;   Formula=C7H19N3;   InChI=1S/C7H19N3/c8-4-1-2-6-10-7-3-5-9/h10H,1-9H2;   InChIKey=ATHGHQPFGPMSJY-UHFFFAOYSA-N;   N-(3-Aminopropyl)-1,4-butane-diamine;   SMILES=NCCCCNCCCN;   Spermidin
 alt_id: CHEBI:15095;   CHEBI:15097;   CHEBI:26732;   CHEBI:26733;   CHEBI:45647;   CHEBI:9218
 xref: Beilstein:1698591;   CAS:124-20-9;   DrugBank:DB03566;   Gmelin:454510;   HMDB:HMDB0001257;   KEGG:C00315;   KNApSAcK:C00001431;   LINCS:LSM-37075
 xref_mesh: MESH:D013095
 xref: MetaCyc:SPERMIDINE;   PDBeChem:SPD;   PMID:1176793;   PMID:19801973;   PMID:22770225;   PMID:30306826;   PMID:516181;   PMID:6156039;   PMID:7350997;   Reaxys:1698591;   Wikipedia:Spermidine
 cyclic_relationship: is_conjugate_base_of CHEBI:57834



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spermidine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adrb1 adrenoceptor beta 1 affects binding ISO Spermidine binds to ADRB1 protein CTD PMID:20885010 NCBI chr 1:255,772,217...255,773,617
Ensembl chr 1:255,771,597...255,807,259
JBrowse link
G Adrb2 adrenoceptor beta 2 affects binding ISO Spermidine binds to ADRB2 protein CTD PMID:20885010 NCBI chr18:55,642,459...55,644,501
Ensembl chr18:55,502,903...55,644,512
JBrowse link
G Aoc1 amine oxidase, copper containing 1 decreases expression EXP Spermidine results in decreased expression of AOC1 protein CTD PMID:1644166 NCBI chr 4:77,812,260...77,831,846
Ensembl chr 4:77,812,260...77,831,840
JBrowse link
G Casp3 caspase 3 multiple interactions ISO [Naphthalimides co-treated with Spermidine] results in increased activity of CASP3 protein; Acetylcysteine inhibits the reaction [[Naphthalimides co-treated with Spermidine] results in increased activity of CASP3 protein] CTD PMID:21349322 NCBI chr16:45,662,910...45,681,171
Ensembl chr16:45,662,910...45,684,648
JBrowse link
G Col2a1 collagen type II alpha 1 chain multiple interactions EXP [COL2A1 protein co-treated with Freund's Adjuvant] results in decreased abundance of Spermidine CTD PMID:24709313 NCBI chr 7:129,098,489...129,127,620
Ensembl chr 7:129,098,786...129,127,546
JBrowse link
G Eif3b eukaryotic translation initiation factor 3, subunit B multiple interactions EXP Spermidine inhibits the reaction [Pentanoic Acids results in increased expression of EIF3B protein] CTD PMID:22555848 NCBI chr12:14,196,403...14,220,865
Ensembl chr12:14,196,403...14,220,886
JBrowse link
G Fxyd2 FXYD domain-containing ion transport regulator 2 increases transport ISO FXYD2 protein results in increased transport of Spermidine CTD PMID:11533133 NCBI chr 8:45,712,887...45,720,032
Ensembl chr 8:45,712,903...45,720,203
JBrowse link
G Gast gastrin increases abundance EXP GAST protein results in increased abundance of Spermidine CTD PMID:1644166 NCBI chr10:85,264,832...85,269,393
Ensembl chr10:85,264,832...85,267,496
JBrowse link
G Gclm glutamate cysteine ligase, modifier subunit multiple interactions
increases expression
ISO pimagedine inhibits the reaction [Spermidine results in increased expression of GCLM mRNA] CTD PMID:12763045 NCBI chr 2:210,347,482...210,367,537
Ensembl chr 2:210,347,482...210,367,535
JBrowse link
G Gsta2 glutathione S-transferase alpha 2 increases expression
multiple interactions
ISO Spermidine results in increased expression of GSTA1 mRNA
pimagedine inhibits the reaction [Spermidine results in increased expression of GSTA1 mRNA]
CTD PMID:12763045 NCBI chr 8:79,184,535...79,196,827
Ensembl chr 8:79,184,322...79,196,798
JBrowse link
G Gsta6 glutathione S-transferase alpha 6 increases expression
multiple interactions
ISO Spermidine results in increased expression of GSTA1 mRNA
pimagedine inhibits the reaction [Spermidine results in increased expression of GSTA1 mRNA]
CTD PMID:12763045 NCBI chr 9:23,743,262...23,806,260
Ensembl chr 9:23,744,288...23,801,131
JBrowse link
G Gstm1 glutathione S-transferase mu 1 increases expression
multiple interactions
ISO Spermidine results in increased expression of GSTM1 mRNA
pimagedine inhibits the reaction [Spermidine results in increased expression of GSTM1 mRNA]
CTD PMID:12763045 NCBI chr 2:195,649,845...195,655,402
Ensembl chr 2:195,649,845...195,655,411
JBrowse link
G Nfe2l2 NFE2 like bZIP transcription factor 2 affects localization ISO Spermidine affects the localization of NFE2L2 protein CTD PMID:12763045 NCBI chr 3:60,594,239...60,621,785
Ensembl chr 3:60,594,242...60,621,737
JBrowse link
G Nqo1 NAD(P)H quinone dehydrogenase 1 multiple interactions
increases activity
increases expression
ISO pimagedine inhibits the reaction [Spermidine results in increased activity of NQO1 protein]; pimagedine inhibits the reaction [Spermidine results in increased expression of NQO1 mRNA] CTD PMID:12763045 NCBI chr19:35,295,633...35,310,528
Ensembl chr19:35,295,573...35,310,557
JBrowse link
G Odc1 ornithine decarboxylase 1 multiple interactions
increases abundance
EXP
ISO
[[Ornithine Decarboxylase Inhibitors results in decreased activity of ODC1 protein] which results in decreased chemical synthesis of Polyamines] which results in decreased abundance of Spermidine; [ODC1 protein results in increased chemical synthesis of Polyamines] which results in increased abundance of Spermidine; [Pentanoic Acids results in decreased activity of ODC1 protein] which results in decreased abundance of Spermidine
ODC1 protein results in increased abundance of Spermidine
CTD PMID:20805360 PMID:22555848 NCBI chr 6:40,329,831...40,336,444
Ensembl chr 6:40,329,964...40,336,440
JBrowse link
G Sat1 spermidine/spermine N1-acetyl transferase 1 increases metabolic processing
increases splicing
ISO SAT1 protein results in increased metabolism of Spermidine analog
Spermidine analog results in increased splicing of SAT1 mRNA
CTD PMID:21639123 NCBI chr  X:40,158,354...40,161,641
Ensembl chr  X:40,157,046...40,196,813
JBrowse link
G Smox spermine oxidase multiple interactions ISO [SMOX protein results in increased oxidation of Spermine] which results in increased abundance of Spermidine CTD PMID:23707493 NCBI chr 3:118,731,814...118,767,242
Ensembl chr 3:118,731,900...118,765,710
JBrowse link
G Tia1 TIA1 cytotoxic granule-associated RNA binding protein multiple interactions EXP Spermidine inhibits the reaction [Pentanoic Acids affects the localization of TIA1 protein] CTD PMID:22555848 NCBI chr 4:118,852,765...118,883,252
Ensembl chr 4:118,852,837...118,880,586
JBrowse link
G Ugt1a6 UDP glucuronosyltransferase family 1 member A6 increases expression
multiple interactions
ISO Spermidine results in increased expression of UGT1A6 mRNA
pimagedine inhibits the reaction [Spermidine results in increased expression of UGT1A6 mRNA]
CTD PMID:12763045 NCBI chr 9:88,747,229...88,808,465
Ensembl chr 9:88,713,184...88,808,465
JBrowse link
G Xiap X-linked inhibitor of apoptosis multiple interactions ISO [Naphthalimides co-treated with Spermidine] results in decreased expression of XIAP protein CTD PMID:21349322 NCBI chr  X:120,890,537...120,938,413
Ensembl chr  X:120,897,907...120,934,700
JBrowse link
trypanothione term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Arg1 arginase 1 decreases activity ISO trypanothione results in decreased activity of ARG1 protein CTD PMID:21232540 NCBI chr 1:20,475,878...20,488,422
Ensembl chr 1:20,475,968...20,488,422
JBrowse link
trypanothione disulfide term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Arg1 arginase 1 decreases activity ISO trypanothione results in decreased activity of ARG1 protein CTD PMID:21232540 NCBI chr 1:20,475,878...20,488,422
Ensembl chr 1:20,475,968...20,488,422
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  CHEBI ontology 20059
    role 20009
      biological role 20008
        biochemical role 19630
          autophagy inducer 1345
            spermidine 21
              N(1),N(8)-bis(caffeoyl)spermidine 0
              N(1),N(8)-bis(coumaroyl)spermidine 0
              N(1),N(8)-bis(sinapoyl)-spermidine 0
              N(1),N(8)-bis-(dihydrocaffeoyl)spermidine 0
              N(4)-aminopropylspermidine 0
              N(4)-bis(aminopropyl)spermidine(1+) 0
              N-(3-aminopropyl)but-2-ene-1,4-diamine + 0
              N-[(E)-4-aminobutylidene]propane-1,3-diamine 0
              N-caffeoylspermidine 0
              acetylspermidine + 0
              carboxyspermidine 0
              glutathionylspermidine 0
              mygalin 0
              spermidine alkaloid + 0
              spermidine hydroxycinnamic acid conjugate + 0
              trypanothione + 1
Path 2
Term Annotations click to browse term
  CHEBI ontology 20059
    subatomic particle 20056
      composite particle 20056
        hadron 20056
          baryon 20056
            nucleon 20056
              atomic nucleus 20056
                atom 20056
                  main group element atom 19956
                    main group molecular entity 19956
                      s-block molecular entity 19744
                        hydrogen molecular entity 19736
                          hydrides 19102
                            inorganic hydride 17893
                              pnictogen hydride 17876
                                nitrogen hydride 17766
                                  azane 17518
                                    ammonia 17517
                                      organic amino compound 17517
                                        polyamine 8280
                                          triamine 32
                                            spermidine 21
                                              N(1),N(8)-bis(caffeoyl)spermidine 0
                                              N(1),N(8)-bis(coumaroyl)spermidine 0
                                              N(1),N(8)-bis(sinapoyl)-spermidine 0
                                              N(1),N(8)-bis-(dihydrocaffeoyl)spermidine 0
                                              N(4)-aminopropylspermidine 0
                                              N(4)-bis(aminopropyl)spermidine(1+) 0
                                              N-(3-aminopropyl)but-2-ene-1,4-diamine + 0
                                              N-[(E)-4-aminobutylidene]propane-1,3-diamine 0
                                              N-caffeoylspermidine 0
                                              acetylspermidine + 0
                                              carboxyspermidine 0
                                              glutathionylspermidine 0
                                              mygalin 0
                                              spermidine alkaloid + 0
                                              spermidine hydroxycinnamic acid conjugate + 0
                                              trypanothione + 1
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