halophFGD

Basic Information

Locus ID: Ag2G01122

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Short Name: PDC1

Description: Belongs to the TPP enzyme family

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr2	66459638	66462664	+	Ag2G01122

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.88	64,950.65 Da	31.58	89.78	0.05

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd07038	TPP_PYR_PDC_IPDC_like	45	204	1.07299E-88	-
CDD	cd02005	TPP_PDC_IPDC	404	586	5.71018E-89	-
Pfam	PF00205	Thiamine pyrophosphate enzyme, central domain	240	354	9.0E-20	IPR012000
Pfam	PF02776	Thiamine pyrophosphate enzyme, N-terminal TPP binding domain	42	208	1.8E-34	IPR012001
Pfam	PF02775	Thiamine pyrophosphate enzyme, C-terminal TPP binding domain	449	574	2.7E-14	IPR011766
SUPERFAMILY	SSF52518	Thiamin diphosphate-binding fold (THDP-binding)	404	598	2.32E-42	IPR029061
SUPERFAMILY	SSF52467	DHS-like NAD/FAD-binding domain	234	380	9.61E-33	IPR029035
SUPERFAMILY	SSF52518	Thiamin diphosphate-binding fold (THDP-binding)	42	216	2.75E-43	IPR029061
Gene3D	G3DSA:3.40.50.1220	-	229	391	3.5E-41	-
Gene3D	G3DSA:3.40.50.970	-	399	585	1.4E-56	-
Gene3D	G3DSA:3.40.50.970	-	38	215	5.2E-60	-
PIRSF	PIRSF036565	Pyruvt_ip_decrb	37	598	8.8E-211	IPR012110

Gene Ontology

Molecular Function:

GO:0000287 (magnesium ion binding) GO:0003824 (catalytic activity) GO:0016831 (carboxy-lyase activity) GO:0030976 (thiamine pyrophosphate binding)

KEGG Pathway

KO Term:

K01568 (pyruvate decarboxylase [EC:4.1.1.1])

Pathway:

ko00010 (Glycolysis / Gluconeogenesis) map00010 (Glycolysis / Gluconeogenesis) ko01100 (Metabolic pathways) map01100 (Metabolic pathways) ko01110 (Biosynthesis of secondary metabolites) map01110 (Biosynthesis of secondary metabolites)

Reaction:

R00014 (Pyruvate + Thiamin diphosphate <=> 2-(alpha-Hydroxyethyl)thiamine diphosphate + CO2) R00755 (Acetaldehyde + Thiamin diphosphate <=> 2-(alpha-Hydroxyethyl)thiamine diphosphate)

Best hit

Source	Best Hit ID	Description
TAIR	AT4G33070.1	Thiamine pyrophosphate dependent pyruvate decarboxylase family protein.
RefSeq	XP_017252995.1	PREDICTED: pyruvate decarboxylase 1 [Daucus carota subsp. sativus]
Swiss-Prot	O82647	Pyruvate decarboxylase 1 OS=Arabidopsis thaliana OX=3702 GN=PDC1 PE=2 SV=1
TrEMBL	A0A5J4ZGF7	pyruvate decarboxylase OS=Nyssa sinensis OX=561372 GN=F0562_015242 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	82.945801	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	55.454239	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	58.301903	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	55.286835	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	57.695267	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	53.69463	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	62.657787	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	55.219803	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	116.213219	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	117.819351	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	130.523209	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	111.52906	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	91.699257	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	91.112251	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	73.212029	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	91.325455	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	60.924816	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	63.807686	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	59.85236	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	74.937225	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	74.754997	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	80.966507	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	80.723892	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	93.426422	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	71.673866	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	76.458984	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	56.48629	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	48.856335	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	56.027142	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	23.30464		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	20.461317		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	20.502029		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	83.110924		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	76.244629		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	108.903061		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	74.095001		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	31.067728		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	51.56723		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	33.607857	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	28.53031	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	22.638264	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	290.789551	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	576.020386	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	46.59417	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	54.61039	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	198.692932	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	56.251888	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	61.729202	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	62.34079	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	59.345016	Jinnan Shiqin	flower bud	early flowering period	early flowering period

Network

🔍 Co-expression Network

🔍 Protein-Protein Interaction Network

Orthology

Family	Species	Count	Orthologous Genes
Acanthaceae	Avicennia marina	7	jg14755, jg14756, jg18722, jg22121, jg22123, jg32188, jg3246
Aizoaceae	Mesembryanthemum crystallinum	3	gene_15216, gene_15217, gene_22194
Amaranthaceae	Atriplex hortensis	2	Ah003303, Ah017184
Amaranthaceae	Beta vulgaris	2	BVRB_5g103060, BVRB_8g181940
Amaranthaceae	Salicornia bigelovii	4	Sbi_jg41209, Sbi_jg4794, Sbi_jg49759, Sbi_jg7284
Amaranthaceae	Salicornia europaea	2	Seu_jg12718, Seu_jg1454
Amaranthaceae	Suaeda aralocaspica	2	GOSA_00001442, GOSA_00017146
Amaranthaceae	Suaeda glauca	6	Sgl46081, Sgl50781, Sgl51678, Sgl52844, Sgl56982, Sgl58124
Amaranthaceae	Chenopodium album	5	gene:ENSEOMG00000004764, gene:ENSEOMG00000010316 ... gene:ENSEOMG00000023941, gene:ENSEOMG00000026516, gene:ENSEOMG00000046370
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.5AG0010070, CQ.Regalona.r1.5BG0010590 ... CQ.Regalona.r1.8AG0006470, CQ.Regalona.r1.8BG0006810
Anacardiaceae	Pistacia vera	5	pistato.v30072530, pistato.v30267320, pistato.v30267330 ... pistato.v30267350, pistato.v30267360
Apiaceae	Apium graveolens	4	Ag10G00944, Ag2G00824, Ag2G01122, Ag6G01053
Arecaceae	Cocos nucifera	6	COCNU_04G003400, COCNU_04G013670, COCNU_06G002470 ... COCNU_12G006690, COCNU_14G001460, scaffold065610G000010
Arecaceae	Phoenix dactylifera	8	gene-LOC103695776, gene-LOC103695777, gene-LOC103699703 ... gene-LOC103718137, gene-LOC103718173, gene-LOC103718720, gene-LOC120112312, gene-LOC120112724
Asparagaceae	Asparagus officinalis	3	AsparagusV1_05.2015.V1.1, AsparagusV1_05.494.V1.1 ... AsparagusV1_07.672.V1.1
Asteraceae	Flaveria trinervia	4	Ftri10G22479, Ftri10G22623, Ftri5G16465, Ftri9G25631
Brassicaceae	Arabidopsis thaliana	4	AT4G33070.1, AT5G01320.1, AT5G01330.1, AT5G54960.1
Brassicaceae	Eutrema salsugineum	2	Thhalv10013008m.g.v1.0, Thhalv10013010m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp3g07400.v2.2, Sp6g16910.v2.2, Sp6g40640.v2.2
Brassicaceae	Brassica nigra	4	BniB02g033630.2N, BniB02g058210.2N, BniB05g031580.2N ... BniB07g058460.2N
Casuarinaceae	Casuarina equisetifolia	3	Ceq02G1317, Ceq08G0991, Ceq08G0992
Casuarinaceae	Casuarina glauca	4	Cgl02G1366, Cgl08G1010, Cgl08G1011, Cgl08G1013
Cymodoceaceae	Cymodocea nodosa	4	gene.Cymno04g16770, gene.Cymno04g16790, gene.Cymno05g17950 ... gene.Cymno05g17970
Dunaliellaceae	Dunaliella salina	3	Dusal.0397s00007.v1.0, Dusal.0397s00009.v1.0 ... Dusal.0397s00010.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate03g24810, gene.Thate06g02640, gene.Thate06g02660
Nitrariaceae	Nitraria sibirica	3	evm.TU.LG01.984, evm.TU.LG09.1066, evm.TU.LG12.851
Plantaginaceae	Plantago ovata	7	Pov_00006543, Pov_00006544, Pov_00013274, Pov_00013284 ... Pov_00013385, Pov_00022088, Pov_00038344
Plumbaginaceae	Limonium bicolor	2	Lb2G09235, Lb2G09236
Poaceae	Echinochloa crus-galli	12	AH01.3980, AH02.562, AH03.4143, AH05.2083, BH01.4372 ... BH02.569, BH03.4489, BH05.2217, BH07.2896, CH01.4612, CH02.644, CH05.2298
Poaceae	Eleusine coracana subsp. coracana	8	gene-QOZ80_1AG0010640, gene-QOZ80_1BG0059150 ... gene-QOZ80_3AG0244370, gene-QOZ80_3BG0283790, gene-QOZ80_5AG0369840, gene-QOZ80_5BG0417430, gene-QOZ80_7AG0582750, gene-QOZ80_7BG0613880
Poaceae	Hordeum vulgare	6	HORVU.MOREX.r3.2HG0106770.1, HORVU.MOREX.r3.2HG0106810.1 ... HORVU.MOREX.r3.2HG0108380.1, HORVU.MOREX.r3.3HG0235710.1, HORVU.MOREX.r3.3HG0235810.1, HORVU.MOREX.r3.4HG0384560.1
Poaceae	Lolium multiflorum	12	gene-QYE76_037670, gene-QYE76_037671, gene-QYE76_038443 ... gene-QYE76_038557, gene-QYE76_049834, gene-QYE76_049839, gene-QYE76_049841, gene-QYE76_049843, gene-QYE76_050074, gene-QYE76_050081, gene-QYE76_050082, gene-QYE76_054298
Poaceae	Oryza coarctata	7	Oco01G002410, Oco02G002450, Oco05G010710, Oco06G010950 ... Oco09G011940, Oco10G011900, Oco13G016600
Poaceae	Oryza sativa	5	LOC_Os01g06660.1, LOC_Os03g18220.1, LOC_Os05g39310.1 ... LOC_Os05g39320.1, LOC_Os07g49250.1
Poaceae	Paspalum vaginatum	4	gene-BS78_01G388400, gene-BS78_03G056100, gene-BS78_K307300 ... gene-BS78_09G173100
Poaceae	Puccinellia tenuiflora	10	Pt_Chr0102426, Pt_Chr0102428, Pt_Chr0102454, Pt_Chr0102455 ... Pt_Chr0102456, Pt_Chr0200534, Pt_Chr0205314, Pt_Chr0205320, Pt_Chr0205410, Pt_Chr0305307
Poaceae	Sporobolus alterniflorus	10	Chr01G018750, Chr01G032110, Chr02G023020, Chr04G008760 ... Chr05G013980, Chr07G002930, Chr12G007500, Chr18G011730, Chr22G005980, Chr24G011740
Poaceae	Thinopyrum elongatum	10	Tel2E01G191900, Tel2E01G192500, Tel2E01G193000 ... Tel2E01G193300, Tel2E01G193400, Tel2E01G985700, Tel2E01G990300, Tel3E01G178800, Tel3E01G178900, Tel4E01G345100
Poaceae	Triticum dicoccoides	12	gene_TRIDC2AG009980, gene_TRIDC2AG010000 ... gene_TRIDC2AG076990, gene_TRIDC2BG010020, gene_TRIDC2BG011950, gene_TRIDC2BG012550, gene_TRIDC2BG084540, gene_TRIDC3AG012480, gene_TRIDC3BG016740, gene_TRIDC3BG016790, gene_TRIDC4AG015320, gene_TRIDC4BG033660
Poaceae	Triticum aestivum	19	TraesCS2A02G088400.1, TraesCS2A02G088600.1 ... TraesCS2A02G552200.1, TraesCS2B02G103900.1, TraesCS2B02G104000.1, TraesCS2B02G583600.1, TraesCS2D02G086000.1, TraesCS2D02G086100.1, TraesCS2D02G086300.1, TraesCS3A02G102100.1, TraesCS3A02G102200.2, TraesCS3B02G119800.1, TraesCS3B02G120000.1, TraesCS3D02G104300.1, TraesCS3D02G104500.1, TraesCS4A02G110900.1, TraesCS4B02G193200.1, TraesCS4D02G194200.1, TraesCSU02G014800.1
Poaceae	Zea mays	5	Zm00001eb013520_P001, Zm00001eb303340_P001 ... Zm00001eb331530_P001, Zm00001eb336190_P001, Zm00001eb351810_P001
Poaceae	Zoysia japonica	11	nbis-gene-13078, nbis-gene-13080, nbis-gene-14203 ... nbis-gene-1951, nbis-gene-24190, nbis-gene-33313, nbis-gene-3608, nbis-gene-54988, nbis-gene-55798, nbis-gene-56925, nbis-gene-6895
Poaceae	Zoysia macrostachya	8	Zma_g10000, Zma_g1440, Zma_g27029, Zma_g28413, Zma_g3831 ... Zma_g5837, Zma_g7642, Zma_g7644
Portulacaceae	Portulaca oleracea	6	evm.TU.LG01.398, evm.TU.LG04.2829, evm.TU.LG04.365 ... evm.TU.LG16.821, evm.TU.LG18.533, evm.TU.LG26.502
Posidoniaceae	Posidonia oceanica	3	gene.Posoc01g37210, gene.Posoc01g37220, gene.Posoc08g14390
Rhizophoraceae	Bruguiera sexangula	2	evm.TU.Scaffold_13_RagTag.321, evm.TU.Scaffold_2_RagTag.609
Rhizophoraceae	Carallia pectinifolia	2	nbisL1-mrna-30807, nbisL1-mrna-4583
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-3096, nbisL1-mrna-9571
Rhizophoraceae	Ceriops zippeliana	2	nbisL1-mrna-21003, nbisL1-mrna-9591
Rhizophoraceae	Kandelia candel	2	evm.TU.utg000009l.1002, evm.TU.utg000015l.194
Rhizophoraceae	Kandelia obovata	2	Maker00005220, Maker00015765
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-2673, nbisL1-mrna-5901
Rhizophoraceae	Rhizophora mangle	2	nbisL1-mrna-16678, nbisL1-mrna-16814
Salicaceae	Populus euphratica	9	populus_peu09968, populus_peu11450, populus_peu18085 ... populus_peu24604, populus_peu24605, populus_peu25421, populus_peu25422, populus_peu25443, populus_peu36069
Solanaceae	Lycium barbarum	5	gene-LOC132606779, gene-LOC132621555, gene-LOC132626460 ... gene-LOC132630873, gene-LOC132644276
Solanaceae	Solanum chilense	4	SOLCI001532800, SOLCI002069200, SOLCI003855800 ... SOLCI006769300
Solanaceae	Solanum pennellii	3	gene-LOC107009317, gene-LOC107022972, gene-LOC107032099
Tamaricaceae	Reaumuria soongarica	2	STRG.20624_chr08_-, gene_9739
Tamaricaceae	Tamarix chinensis	2	TC06G0272, TC08G0496
Zosteraceae	Zostera marina	2	Zosma02g21700.v3.1, Zosma02g21710.v3.1