halophFGD

Basic Information

Locus ID: nbisL1-mrna-12332

Species & Taxonomic ID: Rhizophora apiculata & 106626

Genome Assembly: GCA_037832385.1

Description: Catalyzes the oxidation of 3-carboxy-2-hydroxy-4- methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2- oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr6	4661949	4665496	+	nbisL1-mrna-12332

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.45	26,311.80 Da	33.38	97.99	-0.07

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
Pfam	PF00180	Isocitrate/isopropylmalate dehydrogenase	2	168	7.1E-30	IPR024084
Pfam	PF00180	Isocitrate/isopropylmalate dehydrogenase	170	236	9.8E-23	IPR024084
SUPERFAMILY	SSF53659	Isocitrate/Isopropylmalate dehydrogenase-like	2	235	7.62E-49	-
Gene3D	G3DSA:3.40.718.10	Isopropylmalate Dehydrogenase	1	166	1.9E-30	-
Gene3D	G3DSA:3.40.718.10	Isopropylmalate Dehydrogenase	167	242	7.5E-23	-
SMART	SM01329	Iso_dh_2	1	238	2.1E-16	IPR024084

Gene Ontology

Molecular Function:

GO:0016616 (oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor)

KEGG Pathway

KO Term:

K00052 (3-isopropylmalate dehydrogenase [EC:1.1.1.85])

Pathway:

ko00290 (Valine, leucine and isoleucine biosynthesis) map00290 (Valine, leucine and isoleucine biosynthesis) ko00660 (C5-Branched dibasic acid metabolism) map00660 (C5-Branched dibasic acid metabolism) ko01100 (Metabolic pathways) map01100 (Metabolic pathways) ko01110 (Biosynthesis of secondary metabolites) map01110 (Biosynthesis of secondary metabolites) ko01210 (2-Oxocarboxylic acid metabolism) map01210 (2-Oxocarboxylic acid metabolism) ko01230 (Biosynthesis of amino acids) map01230 (Biosynthesis of amino acids)

Module:

M00432 (Leucine biosynthesis, 2-oxoisovalerate => 2-oxoisocaproate) M00535 (Isoleucine biosynthesis, pyruvate => 2-oxobutanoate)

Reaction:

R00994 (2-Oxobutanoate + CO2 + NADH + H+ <=> D-erythro-3-Methylmalate + NAD+) R04426 ((2R,3S)-3-Isopropylmalate + NAD+ <=> (2S)-2-Isopropyl-3-oxosuccinate + NADH + H+) R10052 ((2R,3S)-3-Isopropylmalate + NAD+ <=> 4-Methyl-2-oxopentanoate + CO2 + NADH + H+)

Best hit

Source	Best Hit ID	Description
TAIR	AT1G80560.1	isopropylmalate dehydrogenase 2. The AtIMD2 is one out of 3 genes encoding the enzyme 3-isopropylmalate dehydrogenase involved in leucine biosynthesis in Arabidopsis. Its subcellular location has been targeted to plastids.
RefSeq	XP_021897987.1	3-isopropylmalate dehydrogenase, chloroplastic-like [Carica papaya]
Swiss-Prot	P29102	3-isopropylmalate dehydrogenase, chloroplastic OS=Brassica napus OX=3708 PE=2 SV=1
TrEMBL	A0A6A6NE46	Iso_dh domain-containing protein OS=Hevea brasiliensis OX=3981 GN=GH714_033391 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
No sample metadata found.

Network

No network data available for this species.

Orthology

Family	Species	Count	Orthologous Genes
Acanthaceae	Avicennia marina	2	jg18287, jg528
Aizoaceae	Mesembryanthemum crystallinum	2	gene_25751, gene_26229
Amaranthaceae	Atriplex hortensis	1	Ah010419
Amaranthaceae	Beta vulgaris	1	BVRB_9g219010
Amaranthaceae	Salicornia bigelovii	3	Sbi_jg11636, Sbi_jg46763, Sbi_jg46764
Amaranthaceae	Salicornia europaea	1	Seu_jg20890
Amaranthaceae	Suaeda aralocaspica	1	GOSA_00005123
Amaranthaceae	Suaeda glauca	3	Sgl56347, Sgl61180, Sgl61877
Amaranthaceae	Chenopodium album	3	gene:ENSEOMG00000018016, gene:ENSEOMG00000038486 ... gene:ENSEOMG00000050924
Amaranthaceae	Chenopodium quinoa	2	CQ.Regalona.r1.7BG0009150, CQ.Regalona.r1.9AG0015370
Anacardiaceae	Pistacia vera	2	pistato.v30129510, pistato.v30129560
Apiaceae	Apium graveolens	1	Ag9G01190
Arecaceae	Cocos nucifera	1	COCNU_16G001040
Arecaceae	Phoenix dactylifera	1	gene-LOC103714417
Asparagaceae	Asparagus officinalis	1	AsparagusV1_Unassigned.879.V1.1
Asteraceae	Flaveria trinervia	1	Ftri16G21300
Brassicaceae	Arabidopsis thaliana	4	AT1G31180.1, AT1G80555.1, AT1G80560.1, AT5G14200.1
Brassicaceae	Eutrema salsugineum	2	Thhalv10013695m.g.v1.0, Thhalv10018649m.g.v1.0
Brassicaceae	Schrenkiella parvula	5	Sp5g29930.v2.2, Sp5g35220.v2.2, Sp5g35230.v2.2 ... Sp6g29830.v2.2, SpUn0049_0030.v2.2
Brassicaceae	Brassica nigra	6	BniB05g024330.2N, BniB05g075620.2N, BniB05g075630.2N ... BniB05g075660.2N, BniB05g075670.2N, BniB06g068370.2N
Casuarinaceae	Casuarina equisetifolia	2	Ceq02G0369, Ceq02G0401
Casuarinaceae	Casuarina glauca	1	Cgl02G0390
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno02g16450, gene.Cymno02g16760
Dunaliellaceae	Dunaliella salina	1	Dusal.0239s00002.v1.0
Hydrocharitaceae	Thalassia testudinum	1	gene.Thate04g18480
Nitrariaceae	Nitraria sibirica	1	evm.TU.LG03.1966
Plantaginaceae	Plantago ovata	1	Pov_00034531
Plumbaginaceae	Limonium bicolor	2	Lb7G32910, Lb7G32911
Poaceae	Echinochloa crus-galli	3	AH09.2783, BH09.3019, CH09.3186
Poaceae	Eleusine coracana subsp. coracana	2	gene-QOZ80_4AG0298620, gene-QOZ80_4BG0329320
Poaceae	Hordeum vulgare	1	HORVU.MOREX.r3.2HG0214780.1
Poaceae	Lolium multiflorum	3	gene-QYE76_011123, gene-QYE76_017999, gene-QYE76_049572
Poaceae	Oryza coarctata	2	Oco05G019360, Oco06G020270
Poaceae	Oryza sativa	1	LOC_Os03g45320.1
Poaceae	Paspalum vaginatum	1	gene-BS78_06G291900
Poaceae	Puccinellia tenuiflora	2	Pt_Chr0206518, Pt_Chr0306994
Poaceae	Sporobolus alterniflorus	4	Chr05G015640, Chr23G000380, Chr25G000320, Chr26G018810
Poaceae	Thinopyrum elongatum	2	Tel2E01G995400, Tel3E01G007700
Poaceae	Triticum dicoccoides	5	gene_TRIDC1BG004300, gene_TRIDC2AG080070 ... gene_TRIDC2BG088160, gene_TRIDC3AG002820, gene_TRIDC3BG000830
Poaceae	Triticum aestivum	6	TraesCS2A02G577600.1, TraesCS2B02G609800.1 ... TraesCS2D02G589000.1, TraesCS3B02G006100.1, TraesCS3D02G007500.1, TraesCSU02G040000.1
Poaceae	Zea mays	3	Zm00001eb013290_P001, Zm00001eb076030_P001 ... Zm00001eb434270_P001
Poaceae	Zoysia japonica	1	nbis-gene-18097
Poaceae	Zoysia macrostachya	2	Zma_g22277, Zma_g27771
Portulacaceae	Portulaca oleracea	2	evm.TU.LG07.1807, evm.TU.LG15.1362
Posidoniaceae	Posidonia oceanica	3	gene.Posoc04g05940, gene.Posoc04g05950, gene.Posoc08g09870
Rhizophoraceae	Bruguiera sexangula	1	evm.TU.Scaffold_18_RagTag.303
Rhizophoraceae	Carallia pectinifolia	1	nbisL1-mrna-28199
Rhizophoraceae	Ceriops tagal	1	nbisL1-mrna-947
Rhizophoraceae	Ceriops zippeliana	1	nbisL1-mrna-7787
Rhizophoraceae	Kandelia candel	1	evm.TU.utg000023l.236
Rhizophoraceae	Kandelia obovata	1	Maker00019035
Rhizophoraceae	Rhizophora apiculata	12	nbisL1-mrna-12310, nbisL1-mrna-12311, nbisL1-mrna-12330 ... nbisL1-mrna-12331, nbisL1-mrna-12332, nbisL1-mrna-12333, nbisL1-mrna-12336, nbisL1-mrna-12338, nbisL1-mrna-12339, nbisL1-mrna-12340, nbisL1-mrna-13324, nbisL1-mrna-21725
Rhizophoraceae	Rhizophora mangle	1	nbisL1-mrna-10476
Salicaceae	Populus euphratica	2	populus_peu02672, populus_peu02721
Solanaceae	Lycium barbarum	1	gene-LOC132641725
Solanaceae	Solanum chilense	1	SOLCI004060600
Solanaceae	Solanum pennellii	1	gene-LOC107019819
Tamaricaceae	Reaumuria soongarica	1	STRG.19293_chr07_-
Tamaricaceae	Tamarix chinensis	1	TC08G2286
Zosteraceae	Zostera marina	2	Zosma01g23290.v3.1, Zosma07g00570.v3.1