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ONTOLOGY REPORT - ANNOTATIONS


Term:indole-containing compound metabolic process
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Accession:GO:0042430 term browser browse the term
Definition:The chemical reactions and pathways involving compounds that contain an indole (2,3-benzopyrrole) skeleton.
Synonyms:exact_synonym: indole and derivative metabolic process;   indole and derivative metabolism;   indole-containing compound metabolism;   ketole metabolic process;   ketole metabolism
 narrow_synonym: indole derivative metabolic process;   indole derivative metabolism
 alt_id: GO:0042434


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'de novo' NAD biosynthetic process from tryptophan term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Afmid arylformamidase IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr10:106,828,963...106,844,314
Ensembl chr10:106,828,981...106,844,314
JBrowse link
G Haao 3-hydroxyanthranilate 3,4-dioxygenase IBA
IEA
PMID:21873635
GO_REF:0000104
UniProt PMID:21873635 GO_REF:0000104, RGD:13792537 NCBI chr 6:7,045,145...7,059,227
Ensembl chr 6:7,045,152...7,058,314
JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:72,216,326...72,228,098
Ensembl chr16:72,216,326...72,228,098
JBrowse link
G Ido2 indoleamine 2,3-dioxygenase 2 IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:72,232,852...72,291,227
Ensembl chr16:72,268,943...72,289,156
JBrowse link
G Kmo kynurenine 3-monooxygenase IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr13:93,684,324...93,715,378
Ensembl chr13:93,684,437...93,716,227
JBrowse link
G Kynu kynureninase IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr 3:28,416,926...28,566,939
Ensembl chr 3:28,416,954...28,566,928
JBrowse link
indole metabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Slc34a1 solute carrier family 34 member 1 IEP bisindolylmaleimide I RGD PMID:10332085 RGD:7243183 NCBI chr17:9,747,766...9,762,739
Ensembl chr17:9,747,752...9,762,813
JBrowse link
melatonin biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aanat aralkylamine N-acetyltransferase TAS
IBA
ISS
ISO
IEA
PMID:21873635
GO_REF:0000024
(PMID:11313340)
GO_REF:0000041
UniProt
RGD
PMID:11313340, PMID:9054387, PMID:21873635 GO_REF:0000024, GO_REF:0000041, RGD:67926, RGD:13792537 NCBI chr10:105,568,091...105,572,407
Ensembl chr10:105,568,091...105,572,403
JBrowse link
G Asmt acetylserotonin O-methyltransferase IDA
IBA
ISO
IEA
PMID:21873635
(MGI:MGI:4442290|PMID:20308563), (MGI:MGI:56619|PMID:3941912)
(PMID:22775292)
GO_REF:0000041
RGD
UniProt
PMID:3941912, PMID:20308563, PMID:22775292, PMID:8930356, PMID:21873635, PMID:12198599 GO_REF:0000041, MGI:MGI:4442290, MGI:MGI:56619, RGD:1299464, RGD:13792537, RGD:1359073 NCBI chr12:18,521,383...18,527,036
Ensembl chr12:18,521,401...18,526,250
JBrowse link
melatonin metabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cyp19a1 cytochrome P450, family 19, subfamily a, polypeptide 1 IEP RGD PMID:17700567 RGD:4890365 NCBI chr 8:58,744,849...58,772,408
Ensembl chr 8:58,744,849...58,772,408
JBrowse link
serotonin biosynthetic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ddc dopa decarboxylase IDA
IBA
PMID:21873635 RGD
GO_Central
PMID:10027744, PMID:21873635 RGD:5129182, RGD:13792537 NCBI chr14:91,905,919...91,996,816
Ensembl chr14:91,905,919...91,996,774
JBrowse link
G Tph2 tryptophan hydroxylase 2 IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 7:58,042,279...58,149,220
Ensembl chr 7:58,042,281...58,149,061
JBrowse link
serotonin biosynthetic process from tryptophan term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cyp2d4 cytochrome P450, family 2, subfamily d, polypeptide 4 IDA RGD PMID:23098818 RGD:11353778 NCBI chr 7:123,599,264...123,608,436
Ensembl chr 7:123,599,266...123,608,436
JBrowse link
G Tph1 tryptophan hydroxylase 1 TAS RGD PMID:12153488 RGD:625621 NCBI chr 1:102,669,868...102,699,442
Ensembl chr 1:102,669,868...102,699,442
JBrowse link
serotonin metabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp2b2 ATPase plasma membrane Ca2+ transporting 2 ISO MGI:MGI:1857092 (MGI:MGI:68065|PMID:2765934) RGD PMID:2765934 MGI:MGI:68065 NCBI chr 4:145,704,779...145,948,997
Ensembl chr 4:145,703,046...146,016,325
JBrowse link
G Atp7a ATPase copper transporting alpha ISO MGI:MGI:1856098 (MGI:MGI:65000|PMID:8174230) RGD PMID:8174230 MGI:MGI:65000 NCBI chr  X:77,076,085...77,193,644
Ensembl chr  X:77,076,106...77,193,644
JBrowse link
G Btbd9 BTB domain containing 9 ISO MGI:MGI:4127237 (MGI:MGI:5436392|PMID:22678064) RGD PMID:22678064 MGI:MGI:5436392 NCBI chr20:8,899,286...9,253,936
Ensembl chr20:8,901,931...9,249,820
JBrowse link
G Grin2a glutamate ionotropic receptor NMDA type subunit 2A ISO
IEA
MGI:MGI:1928285 (MGI:MGI:2384280|PMID:11160454)
GO_REF:0000107
RGD
Ensembl
PMID:11160454 GO_REF:0000107, MGI:MGI:2384280 NCBI chr10:5,707,806...6,123,568
Ensembl chr10:5,930,298...6,119,990
JBrowse link
G Htr1a 5-hydroxytryptamine receptor 1A ISO
ISS
(MGI:MGI:1927024|PMID:11080193)
GO_REF:0000024
RGD
UniProt
PMID:11080193 GO_REF:0000024, MGI:MGI:1927024 NCBI chr 2:36,246,628...36,247,896
Ensembl chr 2:36,246,628...36,247,896
JBrowse link
G Maoa monoamine oxidase A IDA
IMP
Y402A, Y407A, Y410A had an impact on the properties of the protein while Y402F, Y410F had little effect; the residues are near the C406 FAD binding site RGD PMID:11754741, PMID:11754741, PMID:11263670 RGD:1600709, RGD:1600709, RGD:1600713 NCBI chr  X:6,554,698...6,620,722
Ensembl chr  X:6,554,698...6,620,722
JBrowse link
G Pde1b phosphodiesterase 1B ISO MGI:MGI:3604470 (MGI:MGI:3769297|PMID:17559891) RGD PMID:17559891 MGI:MGI:3769297 NCBI chr 7:145,117,951...145,147,711
Ensembl chr 7:145,117,951...145,145,376
JBrowse link
G Rnf180 ring finger protein 180 ISO
IBA
(MGI:MGI:5505713|PMID:23926250)
PMID:21873635
RGD PMID:23926250, PMID:21873635 MGI:MGI:5505713, RGD:13792537 NCBI chr 2:35,718,100...35,892,578
Ensembl chr 2:35,718,889...35,870,578
JBrowse link
G Spr sepiapterin reductase ISO MGI:MGI:3757641 (MGI:MGI:3722569|PMID:16532389) RGD PMID:16532389 MGI:MGI:3722569 NCBI chr 4:116,912,343...116,916,073
Ensembl chr 4:116,912,351...116,916,236
JBrowse link
G Srd5a1 steroid 5 alpha-reductase 1 IEP RGD PMID:15936112 RGD:4891926 NCBI chr 1:36,320,504...36,354,694
Ensembl chr 1:36,320,461...36,354,756
JBrowse link
tryptophan catabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acmsd aminocarboxymuconate semialdehyde decarboxylase IDA RGD PMID:11802786 RGD:70243 NCBI chr13:44,424,689...44,468,734
Ensembl chr13:44,424,689...44,468,734
JBrowse link
G Haao 3-hydroxyanthranilate 3,4-dioxygenase IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr 6:7,045,145...7,059,227
Ensembl chr 6:7,045,152...7,058,314
JBrowse link
G Kmo kynurenine 3-monooxygenase IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr13:93,684,324...93,715,378
Ensembl chr13:93,684,437...93,716,227
JBrowse link
G Kynu kynureninase ISO (PMID:17334708) RGD PMID:17334708 NCBI chr 3:28,416,926...28,566,939
Ensembl chr 3:28,416,954...28,566,928
JBrowse link
tryptophan catabolic process to acetyl-CoA term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Kynu kynureninase IDA RGD PMID:7236232 RGD:2303721 NCBI chr 3:28,416,926...28,566,939
Ensembl chr 3:28,416,954...28,566,928
JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase IDA
IBA
PMID:21873635 RGD
GO_Central
PMID:7236232, PMID:21873635 RGD:2303721, RGD:13792537 NCBI chr 2:180,897,059...180,914,919
Ensembl chr 2:180,897,011...180,914,940
JBrowse link
tryptophan catabolic process to kynurenine term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Afmid arylformamidase ISO
IBA
IEA
(MGI:MGI:3587527|PMID:15866519)
PMID:21873635
GO_REF:0000041
RGD
UniProt
PMID:15866519, PMID:21873635 GO_REF:0000041, MGI:MGI:3587527, RGD:13792537 NCBI chr10:106,828,963...106,844,314
Ensembl chr10:106,828,981...106,844,314
JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 IDA
IBA
ISO
IEA
PMID:21873635
(MGI:MGI:2151782|PMID:2419335), (MGI:MGI:2156954|PMID:11751753)
GO_REF:0000107
RGD
Ensembl
PMID:2419335, PMID:11751753, PMID:10719243, PMID:21873635, PMID:11513477 GO_REF:0000107, MGI:MGI:2151782, MGI:MGI:2156954, RGD:2290190, RGD:13792537, RGD:2290543 NCBI chr16:72,216,326...72,228,098
Ensembl chr16:72,216,326...72,228,098
JBrowse link
G Ido2 indoleamine 2,3-dioxygenase 2 IEA
IBA
ISO
GO_REF:0000041
PMID:21873635
(MGI:MGI:3712725|PMID:17499941), (MGI:MGI:3719924|PMID:17671174)
(PMID:17671174)
GO_REF:0000107
UniProt
RGD
Ensembl
PMID:17499941, PMID:17671174, PMID:21873635 GO_REF:0000041, GO_REF:0000107, MGI:MGI:3712725, MGI:MGI:3719924, RGD:13792537 NCBI chr16:72,232,852...72,291,227
Ensembl chr16:72,268,943...72,289,156
JBrowse link
G Kynu kynureninase IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 3:28,416,926...28,566,939
Ensembl chr 3:28,416,954...28,566,928
JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase IEA
ISS
ISO
GO_REF:0000041
GO_REF:0000024
(PMID:27762317)
UniProt
RGD
PMID:27762317 GO_REF:0000024, GO_REF:0000041 NCBI chr 2:180,897,059...180,914,919
Ensembl chr 2:180,897,011...180,914,940
JBrowse link
tryptophan metabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp7a ATPase copper transporting alpha ISO MGI:MGI:1856102 (MGI:MGI:53851|PMID:4147174) RGD PMID:4147174 MGI:MGI:53851 NCBI chr  X:77,076,085...77,193,644
Ensembl chr  X:77,076,106...77,193,644
JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase IDA RGD PMID:10719243, PMID:3899109, PMID:3400092 RGD:2290190, RGD:2291804, RGD:2290313 NCBI chr 2:180,897,059...180,914,919
Ensembl chr 2:180,897,011...180,914,940
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20028
    metabolic process 12271
      cellular metabolic process 11085
        cellular aromatic compound metabolic process 5715
          indole-containing compound metabolic process 26
            brevianamide F metabolic process + 0
            fumiquinazoline F metabolic process + 0
            indolalkylamine metabolic process + 11
            indole glucosinolate metabolic process + 0
            indole metabolic process + 1
            indole phytoalexin metabolic process + 0
            indole-containing compound biosynthetic process + 6
            indole-containing compound catabolic process + 8
            indoleacetic acid metabolic process + 0
            indolebutyric acid metabolic process 0
            melatonin metabolic process + 3
            serotonin metabolic process + 14
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.