Basic Information
Locus ID:
Ag9G00485
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
FDH1
Description:
Catalyzes the NAD( )-dependent oxidation of formate to carbon dioxide. Involved in the cell stress response
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 22181616 | 22184766 | + | Ag9G00485 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.22 | 42,556.14 Da | 29.30 | 90.80 | -0.25 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd05302 | FDH | 38 | 385 | 0.0 | IPR033689 |
| Pfam | PF02826 | D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain | 164 | 342 | 6.6E-51 | IPR006140 |
| Pfam | PF00389 | D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain | 71 | 368 | 2.3E-15 | IPR006139 |
| SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 157 | 343 | 1.28E-52 | IPR036291 |
| SUPERFAMILY | SSF52283 | Formate/glycerate dehydrogenase catalytic domain-like | 50 | 176 | 3.97E-47 | - |
| Gene3D | G3DSA:3.40.50.720 | - | 154 | 344 | 1.3E-164 | - |
| Gene3D | G3DSA:3.40.50.720 | - | 39 | 382 | 1.3E-164 | - |
| ProSitePatterns | PS00065 | D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. | 202 | 229 | - | IPR029752 |
| ProSitePatterns | PS00670 | D-isomer specific 2-hydroxyacid dehydrogenases signature 2. | 252 | 274 | - | IPR029753 |
| ProSitePatterns | PS00671 | D-isomer specific 2-hydroxyacid dehydrogenases signature 3. | 281 | 297 | - | IPR029753 |
| Hamap | MF_03210 | Formate dehydrogenase, mitochondrial. | 38 | 386 | 59.439743 | IPR033689 |
Gene Ontology
KEGG Pathway
Pathway:
ko00630 (Glyoxylate and dicarboxylate metabolism)
map00630 (Glyoxylate and dicarboxylate metabolism)
ko00680 (Methane metabolism)
map00680 (Methane metabolism)
ko01100 (Metabolic pathways)
map01100 (Metabolic pathways)
ko01120 (Microbial metabolism in diverse environments)
map01120 (Microbial metabolism in diverse environments)
ko01200 (Carbon metabolism)
map01200 (Carbon metabolism)
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G14780.1 | formate dehydrogenase. Encodes a NAD-dependent formate dehydrogenase. | 0 |
| RefSeq | XP_017257951.1 | PREDICTED: formate dehydrogenase, mitochondrial [Daucus carota subsp. sativus] | 0 |
| Q07511 | Formate dehydrogenase, mitochondrial OS=Solanum tuberosum OX=4113 GN=FDH1 PE=1 SV=2 | 0 | |
| TrEMBL | A0A161XE37 | Formate dehydrogenase, mitochondrial OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_021682 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 165.38205 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 143.875717 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 101.051025 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 107.111908 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 108.029045 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 68.454407 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 72.642372 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 47.373615 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 101.508476 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 108.429855 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 100.951347 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 92.247704 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 98.106392 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 95.2789 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 62.072857 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 63.035263 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 51.943363 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 238.366043 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 168.998627 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 407.801483 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 340.299316 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 157.872925 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 226.726791 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 147.711121 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 130.538132 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 205.227982 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 193.715897 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 122.526642 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 113.416031 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 327.945374 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 194.670181 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 199.435883 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 465.533081 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 213.736984 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 314.741058 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 448.342133 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 187.022018 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 323.446533 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 40.113125 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 98.093384 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 138.40126 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 434.366791 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 331.594971 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 144.448837 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 207.940277 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 350.334259 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 149.25708 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 120.111496 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 110.100342 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 93.201332 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg17799 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12713 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030137 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg19126, Sbi_jg37548 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5389 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012453 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl22025, Sgl22142, Sgl27286, Sgl27400 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000005312, gene:ENSEOMG00000034761 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0016150, CQ.Regalona.r1.7BG0019470 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30022270 |
| Apiaceae | Apium graveolens | 1 | Ag9G00485 |
| Arecaceae | Cocos nucifera | 2 | COCNU_05G009860, COCNU_13G000820 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103701979, gene-LOC103705850, gene-LOC120113313 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.2782.V1.1, AsparagusV1_01.2783.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri6G01021 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G14780.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10012160m.g.v1.0, Thhalv10013803m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g30980.v2.2, Sp6g29260.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g048000.2N, BniB05g023760.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G1055, Ceq02G1816 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G1096, Cgl02G1895 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno09g07720 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g03390 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 5 | nbisL1-mrna-10314, nbisL1-mrna-12307, nbisL1-mrna-6832 ... |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.389 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00027872 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb4G23151, Lb4G24158 |
| Poaceae | Echinochloa crus-galli | 6 | AH06.1462, AH07.3170, BH06.1477, BH07.3001, CH06.1614 ... |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0520330, gene-QOZ80_6BG0472440 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0676800.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_024678, gene-QYE76_029710 |
| Poaceae | Oryza coarctata | 4 | Oco11G008800, Oco11G008810, Oco11G008890, Oco12G008840 |
| Poaceae | Oryza sativa | 2 | LOC_Os06g29180.1, LOC_Os06g29220.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G249800, gene-BS78_10G149700 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0403923, Pt_Chr0403963 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr14G005670, Chr21G006380 |
| Poaceae | Thinopyrum elongatum | 4 | Tel4E01G022100, Tel4E01G022200, Tel6E01G502900 ... |
| Poaceae | Triticum dicoccoides | 6 | gene_TRIDC4BG010280, gene_TRIDC5BG059530 ... |
| Poaceae | Triticum aestivum | 9 | TraesCS4B02G066400.1, TraesCS4D02G007200.1 ... |
| Poaceae | Zea mays | 6 | Zm00001eb053990_P001, Zm00001eb109380_P001 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-43776 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g31862 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG01.1362, evm.TU.LG14.649 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g05210 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_6_RagTag.165, evm.TU.Scaffold_6_RagTag.168 ... |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-14982 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-647 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-137 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000011l.115 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006881 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-11859 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-17434 |
| Salicaceae | Populus euphratica | 1 | populus_peu26953 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132621519 |
| Solanaceae | Solanum chilense | 1 | SOLCI003448200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107011544 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.23210_chr05_-, gene_13828 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G2232 |
| Zosteraceae | Zostera marina | 1 | Zosma06g07210.v3.1 |