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SEED Subsystem: TCA Cycle in
Burkholderia phytofirmans PsJN
Experiments:
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Role
Gene
Name
2-oxoglutarate dehydrogenase E1 component (
EC 1.2.4.2
)
BPHYT
_RS08110
BPHYT
_RS10505
Aconitate hydratase (
EC 4.2.1.3
)
No genes
Aconitate hydratase 2 (
EC 4.2.1.3
)
BPHYT
_RS10160
Aconitate hydratase X, predicted
No genes
Aconitate hydratase large subunit (
EC 4.2.1.3
)
No genes
Aconitate hydratase small subunit (
EC 4.2.1.3
)
No genes
Archaeal succinyl-CoA ligase [ADP-forming] alpha chain (
EC 6.2.1.5
)
No genes
Archaeal succinyl-CoA ligase [ADP-forming] beta chain (
EC 6.2.1.5
)
No genes
Citrate lyase gamma chain, acyl carrier protein (
EC 4.1.3.6
)
No genes
Citrate synthase (si) (
EC 2.3.3.1
)
BPHYT
_RS19980
BPHYT
_RS27440
BPHYT
_RS33920
Dihydrolipoamide dehydrogenase (
EC 1.8.1.4
)
No genes
Dihydrolipoamide dehydrogenase of 2-oxoglutarate dehydrogenase (
EC 1.8.1.4
)
BPHYT
_RS08120
Dihydrolipoamide dehydrogenase of pyruvate dehydrogenase complex (
EC 1.8.1.4
)
BPHYT
_RS12830
Dihydrolipoamide succinyltransferase component (E2) of 2-oxoglutarate dehydrogenase complex (
EC 2.3.1.61
)
BPHYT
_RS08115
Fumarate hydratase class I (
EC 4.2.1.2
)
No genes
Fumarate hydratase class I, aerobic (
EC 4.2.1.2
)
BPHYT
_RS06985
Fumarate hydratase class II (
EC 4.2.1.2
)
BPHYT
_RS14615
Isocitrate dehydrogenase [NADP] (
EC 1.1.1.42
)
BPHYT
_RS15730
Isocitrate dehydrogenase [NAD] (
EC 1.1.1.41
)
No genes
Malate dehydrogenase (
EC 1.1.1.37
)
BPHYT
_RS27110
BPHYT
_RS28460
BPHYT
_RS33955
Malate:quinone oxidoreductase (
EC 1.1.5.4
)
No genes
Putative Dihydrolipoamide dehydrogenase (
EC 1.8.1.4
)
No genes
Putative malate dehydrogenase (
EC 1.1.1.37
), similar to archaeal MJ1425
No genes
Succinate dehydrogenase flavoprotein subunit (
EC 1.3.99.1
)
BPHYT
_RS33935
Succinate dehydrogenase iron-sulfur protein (
EC 1.3.99.1
)
BPHYT
_RS33930
Succinyl-CoA ligase [ADP-forming] alpha chain (
EC 6.2.1.5
)
BPHYT
_RS16340
Succinyl-CoA ligase [ADP-forming] beta chain (
EC 6.2.1.5
)
BPHYT
_RS16345
Transcriptional regulator of succinyl CoA synthetase operon
No genes
hypothetical protein that often co-occurs with aconitase
BPHYT
_RS25550
Or select organism:
Acidovorax sp. GW101-3H11
Acinetobacter radioresistens SK82
Agrobacterium fabrum C58
Alteromonas macleodii MIT1002
Azospirillum brasilense Sp245
Azospirillum sp. SherDot2
Bacteroides ovatus ATCC 8483
Bacteroides stercoris CC31F
Bacteroides thetaiotaomicron VPI-5482
Bifidobacterium breve UCC2003
Bosea sp. OAE506
Brevundimonas sp. GW460-12-10-14-LB2
Burkholderia phytofirmans PsJN
Castellaniella sp019104865 MT123
Caulobacter crescentus NA1000
Caulobacter crescentus NA1000 Δfur
Cellulophaga baltica 18
Cupriavidus basilensis FW507-4G11
Dechlorosoma suillum PS
Desulfovibrio vulgaris Hildenborough JW710
Desulfovibrio vulgaris Miyazaki F
Dickeya dadantii 3937
Dickeya dianthicola 67-19
Dickeya dianthicola ME23
Dinoroseobacter shibae DFL-12
Dyella japonica UNC79MFTsu3.2
Echinicola vietnamensis KMM 6221, DSM 17526
Enterobacter asburiae PDN3
Enterobacter sp. TBS_079
Erwinia amylovora T8
Erwinia tracheiphila SCR3
Escherichia coli BL21
Escherichia coli BW25113
Escherichia coli ECOR27
Escherichia coli ECOR38
Escherichia coli ECRC100
Escherichia coli ECRC101
Escherichia coli ECRC102
Escherichia coli ECRC62
Escherichia coli ECRC98
Escherichia coli ECRC99
Escherichia coli HS(pFamp)R (ATCC 700891)
Escherichia coli Nissle 1917
Escherichia fergusonii Becca
Fusobacterium nucleatum SB010
Herbaspirillum seropedicae SmR1
Hydrogenophaga sp. GW460-11-11-14-LB1
Kangiella aquimarina DSM 16071
Klebsiella michiganensis M5al
Lysobacter sp. OAE881
Magnetospirillum magneticum AMB-1
Marinobacter adhaerens HP15
Methanococcus maripaludis JJ
Methanococcus maripaludis S2
Methylophilus sp. DMC18
Mucilaginibacter yixingensis YX-36 DSM 26809
Mycobacterium tuberculosis H37Rv
Pantoea sp. MT58
Parabacteroides merdae CL09T00C40
Paraburkholderia bryophila 376MFSha3.1
Paraburkholderia graminis OAS925
Paraburkholderia sabiae LMG 24235
Pectobacterium carotovorum WPP14
Pedobacter sp. GW460-11-11-14-LB5
Phaeobacter inhibens DSM 17395
Phocaeicola dorei CL03T12C01
Phocaeicola vulgatus CL09T03C04
Pontibacter actiniarum KMM 6156, DSM 19842
Pseudomonas aeruginosa PA14
Pseudomonas fluorescens FW300-N1B4
Pseudomonas fluorescens FW300-N2C3
Pseudomonas fluorescens FW300-N2E2
Pseudomonas fluorescens FW300-N2E3
Pseudomonas fluorescens GW456-L13
Pseudomonas fluorescens SBW25
Pseudomonas fluorescens SBW25-INTG
Pseudomonas putida KT2440
Pseudomonas simiae WCS417
Pseudomonas sp. BP01
Pseudomonas sp. DMC3
Pseudomonas sp. RS175
Pseudomonas sp. S08-1
Pseudomonas sp. SVBP6
Pseudomonas stutzeri RCH2
Pseudomonas syringae pv. syringae B728a
Pseudomonas syringae pv. syringae B728a ΔmexB
Rahnella sp. WP5
Ralstonia solanacearum GMI1000
Ralstonia solanacearum IBSBF1503
Ralstonia solanacearum PSI07
Ralstonia solanacearum UW163
Ralstonia sp. UNC404CL21Col
Rhizobium sp. OAE497
Rhodanobacter denitrificans FW104-10B01
Rhodanobacter denitrificans MT42
Rhodanobacter sp. FW510-T8
Rhodanobacter sp000427505 FW510-R12
Rhodopseudomonas palustris CGA009
Rhodospirillum rubrum S1H
Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868
Serratia liquefaciens MT49
Shewanella amazonensis SB2B
Shewanella loihica PV-4
Shewanella oneidensis MR-1
Shewanella sp. ANA-3
Sinorhizobium meliloti 1021
Sphingomonas koreensis DSMZ 15582
Synechococcus elongatus PCC 7942
Synechocystis sp000284455 PCC 6803
Variovorax sp. OAS795
Variovorax sp. SCN45
Vibrio cholerae E7946 ATCC 55056
Xanthobacter sp. DMC5
Xanthomonas campestris pv. campestris strain 8004
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