Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   

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:romidepsin
go back to main search page
Accession:CHEBI:61080 term browser browse the term
Definition:A cyclodepsipeptide consisting of the cyclic disulfide of (2Z)-2-aminobut-2-enoyl, L-valyl, (3S,4E)-3-hydroxy-7-sulfanylhept-4-enoyl, D-valyl and D-cysteinyl residues coupled in sequence and cyclised head-to tail.
Synonyms:exact_synonym: (1S,4S,7Z,10S,16E,21R)-7-ethylidene-4,21-di(propan-2-yl)-2-oxa-12,13-dithia-5,8,20,23-tetraazabicyclo[8.7.6]tricos-16-ene-3,6,9,19,22-pentone
 related_synonym: Antibiotic FR 901228;   Chromadax;   FK228;   FR901228;   Formula=C24H36N4O6S2;   InChI=1S/C24H36N4O6S2/c1-6-16-21(30)28-20(14(4)5)24(33)34-15-9-7-8-10-35-36-12-17(22(31)25-16)26-23(32)19(13(2)3)27-18(29)11-15/h6-7,9,13-15,17,19-20H,8,10-12H2,1-5H3,(H,25,31)(H,26,32)(H,27,29)(H,28,30)/b9-7+,16-6-/t15-,17-,19-,20+/m1/s1;   InChIKey=OHRURASPPZQGQM-GCCNXGTGSA-N;   Istodax;   NSC-630176;   SMILES=C\\C=C1/NC(=O)[C@H]2CSSCC\\C=C\\[C@H](CC(=O)N[C@H](C(C)C)C(=O)N2)OC(=O)[C@@H](NC1=O)C(C)C;   romidepsina;   romidepsine;   romidepsinum
 alt_id: CHEBI:69482
 xref: CAS:128517-07-7;   Drug_Central:4119;   KEGG:D06637
 xref_mesh: MESH:C087123
 xref: PMID:18205373;   PMID:20645688;   PMID:21110829;   PMID:7513682;   PMID:8175483;   Reaxys:6854221;   Wikipedia:Romidepsin



show annotations for term's descendants           Sort by:
romidepsin term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB1 ATP binding cassette subfamily B member 1 decreases response to substance
multiple interactions
increases expression
increases acetylation
EXP ABCB1 protein results in decreased susceptibility to romidepsin
[[Tretinoin co-treated with romidepsin] results in increased expression of ABCB1 mRNA] which results in decreased susceptibility to Doxorubicin; [Tretinoin co-treated with romidepsin] results in increased expression of ABCB1 protein; ABCB1 protein binds to and affects the export of romidepsin; romidepsin promotes the reaction [Tretinoin results in increased expression of ABCB1 mRNA]; Tretinoin promotes the reaction [romidepsin results in increased acetylation of ABCB1 promoter]; valspodar inhibits the reaction [[[Tretinoin co-treated with romidepsin] results in increased expression of ABCB1 mRNA] which results in decreased susceptibility to Doxorubicin]
romidepsin results in increased expression of ABCB1 mRNA; romidepsin results in increased expression of ABCB1 protein
CTD PMID:15634944 PMID:15833893 PMID:16049968 PMID:16223781 NCBI chr 7:87,503,017...87,713,295
Ensembl chr 7:87,503,017...87,713,323
JBrowse link
G ABCC1 ATP binding cassette subfamily C member 1 (ABCC1 blood group) multiple interactions
decreases response to substance
EXP ABCC1 protein binds to and affects the export of romidepsin
ABCC1 protein results in decreased susceptibility to romidepsin
CTD PMID:15634944 PMID:16049968 NCBI chr16:15,949,143...16,143,053
Ensembl chr16:15,949,138...16,143,257
JBrowse link
G AKT1 AKT serine/threonine kinase 1 increases phosphorylation
multiple interactions
EXP romidepsin results in increased phosphorylation of AKT1 protein
romidepsin inhibits the reaction [[mirdametinib co-treated with MK 2206] results in increased phosphorylation of AKT1 protein]
CTD PMID:27634878 NCBI chr14:104,769,349...104,795,748
Ensembl chr14:104,769,349...104,795,759
JBrowse link
G BAK1 BCL2 antagonist/killer 1 multiple interactions
increases expression
EXP [romidepsin co-treated with mirdametinib co-treated with MK 2206] results in increased expression of BAK1 protein; [romidepsin co-treated with mirdametinib] results in increased expression of BAK1 protein; [romidepsin co-treated with MK 2206] results in increased expression of BAK1 protein
romidepsin results in increased expression of BAK1 protein
CTD PMID:27634878 NCBI chr 6:33,572,552...33,580,276
Ensembl chr 6:33,572,547...33,580,293
JBrowse link
G BCL2A1 BCL2 related protein A1 multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of BCL2A1 protein CTD PMID:18223231 NCBI chr15:79,960,892...79,971,196
Ensembl chr15:79,960,892...79,971,196
JBrowse link
G BCL2L1 BCL2 like 1 multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of BCL2L1 protein CTD PMID:18223231 NCBI chr20:31,664,452...31,723,963
Ensembl chr20:31,664,452...31,723,989
JBrowse link
G BCL2L11 BCL2 like 11 multiple interactions
increases expression
EXP [Bortezomib co-treated with romidepsin] results in increased expression of BCL2L11 protein; [romidepsin co-treated with mirdametinib co-treated with MK 2206] results in increased expression of BCL2L11 protein; [romidepsin co-treated with mirdametinib] results in increased expression of BCL2L11 protein; [romidepsin co-treated with MK 2206] results in increased expression of BCL2L11 protein; Acetylcysteine inhibits the reaction [[Bortezomib co-treated with romidepsin] results in increased expression of BCL2L11 protein]
romidepsin results in increased expression of BCL2L11 protein
CTD PMID:15069698 PMID:15173094 PMID:18223231 PMID:27634878 NCBI chr 2:111,120,914...111,168,445
Ensembl chr 2:111,119,378...111,168,444
JBrowse link
G BDNF brain derived neurotrophic factor multiple interactions ISO romidepsin inhibits the reaction [Dexamethasone results in decreased acetylation of BDNF exon]; romidepsin inhibits the reaction [Dexamethasone results in decreased expression of BDNF mRNA] CTD PMID:31518422 NCBI chr11:27,654,893...27,722,030
Ensembl chr11:27,654,893...27,722,058
JBrowse link
G BIRC2 baculoviral IAP repeat containing 2 multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of BIRC2 protein CTD PMID:18223231 NCBI chr11:102,347,214...102,378,670
Ensembl chr11:102,347,211...102,378,670
JBrowse link
G BIRC5 baculoviral IAP repeat containing 5 multiple interactions EXP [romidepsin co-treated with Bortezomib] results in increased cleavage of BIRC5 protein CTD PMID:18223231 NCBI chr17:78,214,253...78,225,635
Ensembl chr17:78,214,186...78,225,636
JBrowse link
G CASP3 caspase 3 increases activity
multiple interactions
increases cleavage
EXP romidepsin results in increased activity of CASP3 protein
alvocidib promotes the reaction [romidepsin results in increased activity of CASP3 protein]; Bortezomib promotes the reaction [romidepsin results in increased cleavage of CASP3 protein]; quizartinib promotes the reaction [romidepsin results in increased cleavage of CASP3 protein]; romidepsin promotes the reaction [quizartinib results in increased cleavage of CASP3 protein]
CTD PMID:15014036 PMID:18223231 PMID:34665271 NCBI chr 4:184,627,696...184,649,447
Ensembl chr 4:184,627,696...184,650,062
JBrowse link
G CASP9 caspase 9 multiple interactions
increases cleavage
EXP Bortezomib promotes the reaction [romidepsin results in increased cleavage of CASP9 protein] CTD PMID:18223231 NCBI chr 1:15,491,401...15,524,912
Ensembl chr 1:15,490,832...15,526,534
JBrowse link
G CCNA2 cyclin A2 decreases expression EXP romidepsin results in decreased expression of CCNA2 protein CTD PMID:15014036 NCBI chr 4:121,816,444...121,823,883
Ensembl chr 4:121,816,444...121,823,883
JBrowse link
G CCNB1 cyclin B1 decreases expression EXP romidepsin results in decreased expression of CCNB1 protein CTD PMID:15014036 NCBI chr 5:69,167,150...69,178,245
Ensembl chr 5:69,167,135...69,178,245
JBrowse link
G CDKN1A cyclin dependent kinase inhibitor 1A increases expression
multiple interactions
EXP romidepsin results in increased expression of CDKN1A mRNA; romidepsin results in increased expression of CDKN1A promoter; romidepsin results in increased expression of CDKN1A protein
alvocidib inhibits the reaction [romidepsin results in increased expression of CDKN1A promoter]; alvocidib inhibits the reaction [romidepsin results in increased expression of CDKN1A protein]; Aspirin promotes the reaction [romidepsin results in increased expression of CDKN1A protein]; calphostin C inhibits the reaction [romidepsin results in increased expression of CDKN1A protein]; Dichlororibofuranosylbenzimidazole inhibits the reaction [romidepsin results in increased expression of CDKN1A protein]; Phorbol 12,13-Dibutyrate inhibits the reaction [alvocidib inhibits the reaction [romidepsin results in increased expression of CDKN1A protein]]; PTGS1 mutant form inhibits the reaction [Aspirin promotes the reaction [romidepsin results in increased expression of CDKN1A protein]]; quizartinib inhibits the reaction [romidepsin results in increased expression of CDKN1A protein]; romidepsin promotes the reaction [Tretinoin results in increased expression of CDKN1A mRNA]
CTD PMID:15014036 PMID:15849726 PMID:16223781 PMID:17230511 PMID:20404564 More... NCBI chr 6:36,676,463...36,687,332
Ensembl chr 6:36,676,460...36,687,337
JBrowse link
G CFLAR CASP8 and FADD like apoptosis regulator multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of CFLAR protein CTD PMID:18223231 NCBI chr 2:201,116,164...201,176,687
Ensembl chr 2:201,116,154...201,176,687
JBrowse link
G CHEK1 checkpoint kinase 1 multiple interactions EXP romidepsin promotes the reaction [quizartinib results in decreased expression of and results in increased phosphorylation of CHEK1 protein] CTD PMID:34665271 NCBI chr11:125,625,136...125,681,124
Ensembl chr11:125,625,163...125,676,255
JBrowse link
G CYP1A1 cytochrome P450 family 1 subfamily A member 1 affects metabolic processing EXP CYP1A1 protein affects the metabolism of romidepsin CTD PMID:15635176 NCBI chr15:74,719,542...74,725,528
Ensembl chr15:74,719,542...74,725,536
JBrowse link
G CYP2B6 cytochrome P450 family 2 subfamily B member 6 affects metabolic processing EXP CYP2B6 protein affects the metabolism of romidepsin CTD PMID:15635176 NCBI chr19:40,991,282...41,018,398
Ensembl chr19:40,991,282...41,018,398
JBrowse link
G CYP3A4 cytochrome P450 family 3 subfamily A member 4 affects metabolic processing EXP CYP3A4 protein affects the metabolism of romidepsin CTD PMID:15635176 NCBI chr 7:99,756,967...99,784,184
Ensembl chr 7:99,756,960...99,784,248
JBrowse link
G CYP3A5 cytochrome P450 family 3 subfamily A member 5 affects metabolic processing EXP CYP3A5 protein affects the metabolism of romidepsin CTD PMID:15635176 NCBI chr 7:99,648,194...99,679,996
Ensembl chr 7:99,648,194...99,679,996
JBrowse link
G EGFR epidermal growth factor receptor decreases expression EXP romidepsin results in decreased expression of EGFR protein CTD PMID:15014036 NCBI chr 7:55,019,017...55,211,628
Ensembl chr 7:55,019,017...55,211,628
JBrowse link
G ERBB2 erb-b2 receptor tyrosine kinase 2 decreases expression EXP romidepsin results in decreased expression of ERBB2 protein CTD PMID:15014036 NCBI chr17:39,688,094...39,728,658
Ensembl chr17:39,687,914...39,730,426
JBrowse link
G EWSR1 EWS RNA binding protein 1 multiple interactions
decreases expression
EXP romidepsin results in decreased activity of and results in decreased expression of EWSR1 protein mutant form
romidepsin results in decreased expression of EWSR1 mRNA mutant form
CTD PMID:15849726 NCBI chr22:29,268,268...29,300,521
Ensembl chr22:29,268,009...29,300,525
JBrowse link
G FLI1 Fli-1 proto-oncogene, ETS transcription factor multiple interactions
decreases expression
EXP romidepsin results in decreased activity of and results in decreased expression of FLI1 protein mutant form
romidepsin results in decreased expression of FLI1 mRNA mutant form
CTD PMID:15849726 NCBI chr11:128,685,351...128,813,267
Ensembl chr11:128,686,535...128,813,267
JBrowse link
G FLT3 fms related receptor tyrosine kinase 3 decreases phosphorylation
multiple interactions
EXP romidepsin results in decreased phosphorylation of FLT3 protein alternative form
quizartinib promotes the reaction [romidepsin results in decreased phosphorylation of FLT3 protein alternative form]; romidepsin promotes the reaction [quizartinib results in decreased phosphorylation of FLT3 protein alternative form]
CTD PMID:34665271 NCBI chr13:28,003,274...28,100,576
Ensembl chr13:28,003,274...28,100,592
JBrowse link
G FOLR2 folate receptor beta multiple interactions EXP romidepsin promotes the reaction [Tretinoin results in increased expression of FOLR2 mRNA]; romidepsin promotes the reaction [Tretinoin results in increased expression of FOLR2 protein] CTD PMID:16740727 NCBI chr11:72,216,794...72,221,950
Ensembl chr11:72,216,601...72,221,950
JBrowse link
G H2AX H2A.X variant histone multiple interactions
increases phosphorylation
EXP [Bortezomib co-treated with romidepsin] results in increased phosphorylation of H2AX protein; Acetylcysteine inhibits the reaction [[Bortezomib co-treated with romidepsin] results in increased phosphorylation of H2AX protein]; quizartinib promotes the reaction [romidepsin results in increased phosphorylation of H2AX protein]; romidepsin promotes the reaction [quizartinib results in increased phosphorylation of H2AX protein] CTD PMID:15173094 PMID:34665271 NCBI chr11:119,093,874...119,095,465
Ensembl chr11:119,093,874...119,095,465
JBrowse link
G H3-4 H3.4 histone, cluster member increases acetylation
multiple interactions
EXP romidepsin results in increased acetylation of H3-4 protein
quizartinib promotes the reaction [romidepsin results in increased acetylation of H3-4 protein]
CTD PMID:16006969 PMID:34665271 NCBI chr 1:228,424,845...228,425,360
Ensembl chr 1:228,424,845...228,425,360
JBrowse link
G HDAC2 histone deacetylase 2 multiple interactions ISO romidepsin inhibits the reaction [Dexamethasone results in decreased expression of HDAC2 protein] CTD PMID:31518422 NCBI chr 6:113,933,028...113,971,148
Ensembl chr 6:113,933,028...114,011,308
JBrowse link
G HIF1A hypoxia inducible factor 1 subunit alpha multiple interactions EXP romidepsin inhibits the reaction [cobaltous chloride results in increased expression of HIF1A protein] CTD PMID:21295294 NCBI chr14:61,695,513...61,748,258
Ensembl chr14:61,695,513...61,748,259
JBrowse link
G ICAM1 intercellular adhesion molecule 1 multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of ICAM1 protein CTD PMID:18223231 NCBI chr19:10,271,120...10,286,615
Ensembl chr19:10,271,093...10,286,615
JBrowse link
G MAPK1 mitogen-activated protein kinase 1 multiple interactions
decreases phosphorylation
EXP quizartinib promotes the reaction [romidepsin results in decreased phosphorylation of MAPK1 protein]; romidepsin promotes the reaction [quizartinib results in decreased phosphorylation of MAPK1 protein]; romidepsin results in decreased activity of and results in decreased phosphorylation of MAPK1 protein CTD PMID:15014036 PMID:34665271 NCBI chr22:21,759,657...21,867,680
Ensembl chr22:21,759,657...21,867,680
JBrowse link
G MAPK3 mitogen-activated protein kinase 3 multiple interactions
decreases phosphorylation
EXP quizartinib promotes the reaction [romidepsin results in decreased phosphorylation of MAPK3 protein]; romidepsin promotes the reaction [quizartinib results in decreased phosphorylation of MAPK3 protein]; romidepsin results in decreased activity of and results in decreased phosphorylation of MAPK3 protein CTD PMID:15014036 PMID:34665271 NCBI chr16:30,114,105...30,123,220
Ensembl chr16:30,114,105...30,123,506
JBrowse link
G MCL1 MCL1 apoptosis regulator, BCL2 family member multiple interactions
increases expression
EXP [romidepsin co-treated with mirdametinib co-treated with MK 2206] results in increased expression of MCL1 protein; [romidepsin co-treated with mirdametinib] results in increased expression of MCL1 protein; [romidepsin co-treated with MK 2206] results in increased expression of MCL1 protein; romidepsin inhibits the reaction [Bortezomib results in increased expression of MCL1 protein]
romidepsin results in increased expression of MCL1 protein
CTD PMID:18223231 PMID:27634878 NCBI chr 1:150,574,558...150,579,610
Ensembl chr 1:150,560,895...150,579,738
JBrowse link
G NFKB1 nuclear factor kappa B subunit 1 multiple interactions
increases expression
EXP Bortezomib inhibits the reaction [romidepsin results in increased expression of NFKB1 protein] CTD PMID:18223231 NCBI chr 4:102,501,359...102,617,302
Ensembl chr 4:102,501,330...102,617,302
JBrowse link
G NFKBIA NFKB inhibitor alpha increases expression
multiple interactions
EXP romidepsin results in increased expression of NFKBIA protein
Bortezomib inhibits the reaction [romidepsin results in increased expression of NFKBIA protein]
CTD PMID:18223231 NCBI chr14:35,401,513...35,404,749
Ensembl chr14:35,401,079...35,404,749
JBrowse link
G NR1I3 nuclear receptor subfamily 1 group I member 3 increases expression EXP romidepsin results in increased expression of NR1I3 mRNA CTD PMID:16006969 NCBI chr 1:161,229,669...161,238,203
Ensembl chr 1:161,229,666...161,238,244
JBrowse link
G PARP1 poly(ADP-ribose) polymerase 1 multiple interactions
increases cleavage
EXP [romidepsin co-treated with MK 2206] results in increased cleavage of PARP1 protein; Bortezomib promotes the reaction [romidepsin results in increased cleavage of PARP1 protein]; romidepsin promotes the reaction [[mirdametinib co-treated with MK 2206] results in increased cleavage of PARP1 protein]; romidepsin promotes the reaction [mirdametinib results in increased cleavage of PARP1 protein] CTD PMID:18223231 PMID:27634878 NCBI chr 1:226,360,691...226,408,093
Ensembl chr 1:226,360,210...226,408,154
JBrowse link
G PTGS1 prostaglandin-endoperoxide synthase 1 multiple interactions EXP PTGS1 mutant form inhibits the reaction [Aspirin promotes the reaction [romidepsin results in increased expression of CDKN1A protein]] CTD PMID:20404564 NCBI chr 9:122,370,533...122,395,703
Ensembl chr 9:122,370,530...122,395,703
JBrowse link
G RAD51 RAD51 recombinase multiple interactions
decreases expression
EXP quizartinib promotes the reaction [romidepsin results in decreased expression of RAD51 protein]; romidepsin promotes the reaction [quizartinib results in decreased expression of RAD51 protein] CTD PMID:34665271 NCBI chr15:40,694,733...40,732,340
Ensembl chr15:40,694,774...40,732,340
JBrowse link
G RAF1 Raf-1 proto-oncogene, serine/threonine kinase decreases expression EXP romidepsin results in decreased expression of RAF1 protein CTD PMID:15014036 NCBI chr 3:12,583,601...12,664,117
Ensembl chr 3:12,582,101...12,664,201
JBrowse link
G RB1 RB transcriptional corepressor 1 decreases phosphorylation EXP romidepsin results in decreased phosphorylation of RB1 protein CTD PMID:15014036 PMID:15849726 NCBI chr13:48,303,751...48,481,890
Ensembl chr13:48,303,744...48,599,436
JBrowse link
G RELA RELA proto-oncogene, NF-kB subunit multiple interactions
decreases response to substance
increases acetylation
EXP Bortezomib inhibits the reaction [romidepsin results in increased acetylation of RELA protein]
RELA protein results in decreased susceptibility to romidepsin
CTD PMID:18223231 NCBI chr11:65,653,601...65,663,857
Ensembl chr11:65,653,599...65,663,090
JBrowse link
G SLC1A2 solute carrier family 1 member 2 multiple interactions
increases expression
ISO romidepsin inhibits the reaction [Manganese results in decreased expression of SLC1A2 mRNA]
romidepsin results in increased expression of SLC1A2 mRNA
CTD PMID:24469401 NCBI chr11:35,251,205...35,420,507
Ensembl chr11:35,251,205...35,420,063
JBrowse link
G TP53 tumor protein p53 multiple interactions EXP romidepsin promotes the reaction [quizartinib results in decreased expression of TP53 protein] CTD PMID:34665271 NCBI chr17:7,668,421...7,687,490
Ensembl chr17:7,661,779...7,687,546
JBrowse link
G VEGFA vascular endothelial growth factor A decreases expression
multiple interactions
EXP romidepsin results in decreased expression of VEGFA mRNA
romidepsin results in decreased expression of and results in decreased secretion of VEGFA protein
CTD PMID:21295294 NCBI chr 6:43,770,211...43,786,487
Ensembl chr 6:43,770,184...43,786,487
JBrowse link
G WEE1 WEE1 G2 checkpoint kinase multiple interactions
decreases expression
EXP quizartinib promotes the reaction [romidepsin results in decreased expression of WEE1 protein]; romidepsin promotes the reaction [quizartinib results in decreased expression of WEE1 protein] CTD PMID:34665271 NCBI chr11:9,573,670...9,589,985
Ensembl chr11:9,573,670...9,593,457
JBrowse link
G XIAP X-linked inhibitor of apoptosis multiple interactions EXP [romidepsin co-treated with Bortezomib] results in decreased expression of XIAP protein CTD PMID:18223231 NCBI chr  X:123,859,708...123,913,972
Ensembl chr  X:123,859,712...123,913,972
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  CHEBI ontology 26429
    role 26261
      biological role 26240
        antimicrobial agent 22482
          heterocyclic antibiotic 3071
            romidepsin 49
Path 2
Term Annotations click to browse term
  CHEBI ontology 26429
    subatomic particle 26405
      composite particle 26405
        hadron 26405
          baryon 26405
            nucleon 26405
              atomic nucleus 26405
                atom 26405
                  main group element atom 26150
                    p-block element atom 26150
                      carbon group element atom 25583
                        carbon atom 25542
                          organic molecular entity 25542
                            heteroorganic entity 24922
                              organochalcogen compound 24513
                                organooxygen compound 24100
                                  carbon oxoacid 22788
                                    carboxylic acid 22768
                                      carboacyl group 20074
                                        univalent carboacyl group 20074
                                          carbamoyl group 19589
                                            carboxamide 19589
                                              peptide 11628
                                                depsipeptide 4636
                                                  cyclodepsipeptide 4623
                                                    romidepsin 49
paths to the root