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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 Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Afmid arylformamidase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr10:103,046,129...103,061,718
Ensembl chr10:103,046,180...103,061,718 		JBrowse link
G Haao 3-hydroxyanthranilate 3,4-dioxygenase involved_in IEA
IBA		 GO_REF:0000104
PMID:21873635		 UniProt PMID:21873635 GO_REF:0000104, RGD:13792537 NCBI chr 6:10,845,235...10,864,863
Ensembl chr 6:10,845,771...10,864,877 		JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:67,430,684...67,442,459
Ensembl chr16:67,430,578...67,442,730 		JBrowse link
G Ido2 indoleamine 2,3-dioxygenase 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr16:67,459,158...67,498,052
Ensembl chr16:67,459,190...67,496,324 		JBrowse link
G Kmo kynurenine 3-monooxygenase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr13:87,557,080...87,589,334
Ensembl chr13:87,557,286...87,588,881 		JBrowse link
G Kynu kynureninase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr 3:27,778,646...27,929,470
Ensembl chr 3:27,778,772...27,929,488 		JBrowse link
indole metabolic process term browser
Symbol Object Name Qualifiers 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 chr17:9,218,876...9,233,852
Ensembl chr17:9,218,876...9,233,852 		JBrowse link
melatonin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aanat aralkylamine N-acetyltransferase involved_in TAS
ISS
ISO
IEA
IBA		 GO_REF:0000024
(PMID:11313340)
GO_REF:0000041
PMID:21873635		 UniProt
RGD		 PMID:11313340 PMID:9054387 PMID:21873635 GO_REF:0000024 GO_REF:0000041, RGD:67926, RGD:13792537 NCBI chr10:101,827,072...101,831,805
Ensembl chr10:101,827,301...101,831,801 		JBrowse link
G Asmt acetylserotonin O-methyltransferase acts_upstream_of_or_within
involved_in		 IDA
ISO
IEA
IBA		 (MGI:4442290|PMID:20308563), (MGI:56619|PMID:3941912)
(PMID:22775292)
GO_REF:0000041
PMID:21873635		 RGD
UniProt		 PMID:3941912 PMID:20308563 PMID:22775292 PMID:8930356 PMID:21873635 More... GO_REF:0000041 MGI:4442290 MGI:56619, RGD:1299464, RGD:13792537, RGD:1359073 NCBI chr12:16,304,719...16,309,568
Ensembl chr12:16,304,719...16,309,568 		JBrowse link
melatonin metabolic process term browser
Symbol Object Name Qualifiers 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 8:54,553,165...54,580,758
Ensembl chr 8:54,553,165...54,580,758 		JBrowse link
regulation of serotonin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aldh2 aldehyde dehydrogenase 2 family member involved_in ISS
ISO		 GO_REF:0000024
(MGI:6827320|PMID:26711020)		 UniProt
RGD		 PMID:26711020 GO_REF:0000024 MGI:6827320 NCBI chr12:34,949,549...34,982,527
Ensembl chr12:34,901,219...34,982,521 		JBrowse link
serotonin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ddc dopa decarboxylase involved_in IDA
IBA		 PMID:21873635 RGD
GO_Central		 PMID:10027744 PMID:21873635 RGD:5129182, RGD:13792537 NCBI chr14:86,378,685...86,469,189
Ensembl chr14:86,378,685...86,469,208 		JBrowse link
G Tph1 tryptophan hydroxylase 1 involved_in ISS
ISO		 GO_REF:0000024
(MGI:2683993|PMID:14697203)		 UniProt
RGD		 PMID:14697203 GO_REF:0000024 MGI:2683993 NCBI chr 1:97,157,375...97,178,415
Ensembl chr 1:97,157,409...97,178,344 		JBrowse link
G Tph2 tryptophan hydroxylase 2 involved_in IEA GO_REF:0000041 UniProt GO_REF:0000041 NCBI chr 7:50,685,694...50,789,424
Ensembl chr 7:50,685,694...50,789,424 		JBrowse link
serotonin biosynthetic process from tryptophan term browser
Symbol Object Name Qualifiers 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 7:113,882,584...113,891,754
Ensembl chr 7:113,881,618...113,891,759 		JBrowse link
G Tph1 tryptophan hydroxylase 1 TAS RGD PMID:12153488 RGD:625621 NCBI chr 1:97,157,375...97,178,415
Ensembl chr 1:97,157,409...97,178,344 		JBrowse link
serotonin metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp2b2 ATPase plasma membrane Ca2+ transporting 2 acts_upstream_of_or_within ISO MGI:1857092 (MGI:68065|PMID:2765934) RGD PMID:2765934 MGI:68065 NCBI chr 4:146,896,332...147,140,665
Ensembl chr 4:146,896,332...147,140,665 		JBrowse link
G Atp7a ATPase copper transporting alpha acts_upstream_of_or_within ISO MGI:1856098 (MGI:65000|PMID:8174230) RGD PMID:8174230 MGI:65000 NCBI chr  X:71,094,144...71,201,550
Ensembl chr  X:71,094,202...71,198,354 		JBrowse link
G Btbd9 BTB domain containing 9 acts_upstream_of_or_within ISO MGI:4127237 (MGI:5436392|PMID:22678064) RGD PMID:22678064 MGI:5436392 NCBI chr20:8,286,337...8,645,567
Ensembl chr20:8,288,711...8,643,960 		JBrowse link
G Grin2a glutamate ionotropic receptor NMDA type subunit 2A involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:1928285 (MGI:2384280|PMID:11160454)		 Ensembl
RGD		 PMID:11160454 GO_REF:0000107 MGI:2384280 NCBI chr10:5,630,684...6,043,341
Ensembl chr10:5,631,369...6,044,637 		JBrowse link
G Htr1a 5-hydroxytryptamine receptor 1A involved_in ISS
ISO		 GO_REF:0000024
(MGI:1927024|PMID:11080193)		 UniProt
RGD		 PMID:11080193 GO_REF:0000024 MGI:1927024 NCBI chr 2:36,694,174...36,695,442
Ensembl chr 2:36,694,174...36,695,442 		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:11263670 PMID:11754741 RGD:1600709, RGD:1600713, RGD:1600709 NCBI chr  X:6,032,172...6,098,308
Ensembl chr  X:6,030,795...6,099,593 		JBrowse link
G Pde1b phosphodiesterase 1B acts_upstream_of_or_within ISO MGI:3604470 (MGI:3769297|PMID:17559891) RGD PMID:17559891 MGI:3769297 NCBI chr 7:134,627,378...134,654,581
Ensembl chr 7:134,627,322...134,654,580 		JBrowse link
G Rnf180 ring finger protein 180 involved_in
acts_upstream_of_or_within		 IBA
ISO		 PMID:21873635
(MGI:5505713|PMID:23926250)		 RGD PMID:23926250 PMID:21873635 MGI:5505713, RGD:13792537 NCBI chr 2:36,330,285...36,511,168
Ensembl chr 2:36,330,292...36,512,614 		JBrowse link
G Spr sepiapterin reductase acts_upstream_of_or_within ISO MGI:3757641 (MGI:3722569|PMID:16532389) RGD PMID:16532389 MGI:3722569 NCBI chr 4:117,671,948...117,676,292
Ensembl chr 4:117,671,949...117,675,678 		JBrowse link
G Srd5a1 steroid 5 alpha-reductase 1 IEP RGD PMID:15936112 RGD:4891926 NCBI chr 1:33,686,069...33,720,468
Ensembl chr 1:33,686,391...33,720,461 		JBrowse link
tryptophan catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acmsd aminocarboxymuconate semialdehyde decarboxylase IDA RGD PMID:11802786 RGD:70243 NCBI chr13:39,200,486...39,244,337
Ensembl chr13:39,200,314...39,245,209 		JBrowse link
G Haao 3-hydroxyanthranilate 3,4-dioxygenase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr 6:10,845,235...10,864,863
Ensembl chr 6:10,845,771...10,864,877 		JBrowse link
G Il4i1 interleukin 4 induced 1 involved_in ISO (PMID:17356132), (PMID:25767141) RGD PMID:17356132 PMID:25767141 NCBI chr 1:95,299,457...95,324,564
Ensembl chr 1:95,295,601...95,324,562 		JBrowse link
G Kmo kynurenine 3-monooxygenase involved_in IEA GO_REF:0000104 UniProt GO_REF:0000104 NCBI chr13:87,557,080...87,589,334
Ensembl chr13:87,557,286...87,588,881 		JBrowse link
G Kynu kynureninase involved_in ISO
IEA		 (PMID:17334708)
GO_REF:0000104		 RGD
UniProt		 PMID:17334708 GO_REF:0000104 NCBI chr 3:27,778,646...27,929,470
Ensembl chr 3:27,778,772...27,929,488 		JBrowse link
tryptophan catabolic process to acetyl-CoA term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Kynu kynureninase IDA RGD PMID:7236232 RGD:2303721 NCBI chr 3:27,778,646...27,929,470
Ensembl chr 3:27,778,772...27,929,488 		JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase involved_in IDA
IBA		 PMID:21873635 RGD
GO_Central		 PMID:7236232 PMID:21873635 RGD:2303721, RGD:13792537 NCBI chr 2:167,269,581...167,287,511
Ensembl chr 2:167,269,579...167,287,511 		JBrowse link
tryptophan catabolic process to indole-3-acetate term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Il4i1 interleukin 4 induced 1 involved_in ISO (PMID:32818467), (PMID:32866000) RGD PMID:32818467 PMID:32866000 NCBI chr 1:95,299,457...95,324,564
Ensembl chr 1:95,295,601...95,324,562 		JBrowse link
tryptophan catabolic process to kynurenine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Afmid arylformamidase involved_in
acts_upstream_of_or_within		 IBA
ISO
IEA		 PMID:21873635
(MGI:3587527|PMID:15866519)
GO_REF:0000041		 RGD
UniProt		 PMID:15866519 PMID:21873635 GO_REF:0000041 MGI:3587527, RGD:13792537 NCBI chr10:103,046,129...103,061,718
Ensembl chr10:103,046,180...103,061,718 		JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 involved_in
acts_upstream_of_or_within		 IDA
IEA
ISO
IBA		 GO_REF:0000107
GO_REF:0000002
(MGI:2151782|PMID:2419335), (MGI:2156954|PMID:11751753)
PMID:21873635		 Ensembl
InterPro
RGD		 PMID:2419335 PMID:11751753 PMID:10719243 PMID:21873635 PMID:11513477 GO_REF:0000002 GO_REF:0000107 MGI:2151782 MGI:2156954, RGD:2290190, RGD:13792537, RGD:2290543 NCBI chr16:67,430,684...67,442,459
Ensembl chr16:67,430,578...67,442,730 		JBrowse link
G Ido2 indoleamine 2,3-dioxygenase 2 involved_in
acts_upstream_of_or_within		 IBA
IEA
ISO		 PMID:21873635
GO_REF:0000041
GO_REF:0000107
(MGI:3712725|PMID:17499941), (MGI:3719924|PMID:17671174)
(PMID:17671174)		 UniProt
Ensembl
RGD		 PMID:17499941 PMID:17671174 PMID:21873635 GO_REF:0000041 GO_REF:0000107 MGI:3712725 MGI:3719924, RGD:13792537 NCBI chr16:67,459,158...67,498,052
Ensembl chr16:67,459,190...67,496,324 		JBrowse link
G Kynu kynureninase involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 3:27,778,646...27,929,470
Ensembl chr 3:27,778,772...27,929,488 		JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase involved_in ISS
ISO
IEA		 GO_REF:0000024
(PMID:27762317)
GO_REF:0000041		 UniProt
RGD		 PMID:27762317 GO_REF:0000024 GO_REF:0000041 NCBI chr 2:167,269,581...167,287,511
Ensembl chr 2:167,269,579...167,287,511 		JBrowse link
tryptophan metabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp7a ATPase copper transporting alpha acts_upstream_of_or_within ISO MGI:1856102 (MGI:53851|PMID:4147174) RGD PMID:4147174 MGI:53851 NCBI chr  X:71,094,144...71,201,550
Ensembl chr  X:71,094,202...71,198,354 		JBrowse link
G Tdo2 tryptophan 2,3-dioxygenase IDA RGD PMID:10719243 PMID:3899109 PMID:3400092 RGD:2290190, RGD:2291804, RGD:2290313 NCBI chr 2:167,269,581...167,287,511
Ensembl chr 2:167,269,579...167,287,511 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19818
    metabolic process 12096
      cellular metabolic process 7496
        cellular aromatic compound metabolic process 3078
          indole-containing compound metabolic process 28
            indolalkylamine metabolic process + 12
            indole glucosinolate metabolic process + 0
            indole metabolic process + 1
            indole phytoalexin metabolic process + 0
            indole-containing compound biosynthetic process + 7
            indole-containing compound catabolic process + 9
            indoleacetic acid metabolic process + 1
            indolebutyric acid metabolic process 0
            melatonin metabolic process + 3
            serotonin metabolic process + 15
paths to the root