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SEED Subsystem: DNA repair, bacterial in
Pedobacter sp. GW460-11-11-14-LB5
Experiments:
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Role
Gene
Name
A/G-specific adenine glycosylase (EC 3.2.2.-)
CA265
_RS22680
ADA regulatory protein
CA265
_RS02300
Alkylated DNA repair protein AlkB
CA265
_RS11950
DNA mismatch repair endonuclease MutH
No genes
DNA polymerase IV (
EC 2.7.7.7
)
CA265
_RS06545
CA265
_RS24610
DNA polymerase-like protein MT3142
No genes
DNA polymerase-like protein PA0670
CA265
_RS11960
CA265
_RS20505
DNA recombination protein RmuC
CA265
_RS21160
DNA recombination-dependent growth factor C
No genes
DNA repair exonuclease family protein YhaO
No genes
DNA repair protein RadA
CA265
_RS22660
DNA repair protein RadC
CA265
_RS02725
CA265
_RS05730
CA265
_RS11695
CA265
_RS14170
DNA repair protein RecN
CA265
_RS14855
DNA-damage-inducible protein I
No genes
DNA-damage-inducible protein J
No genes
Endonuclease IV (
EC 3.1.21.2
)
No genes
Endonuclease V (
EC 3.1.21.7
)
CA265
_RS09355
Exodeoxyribonuclease III (
EC 3.1.11.2
)
CA265
_RS16670
CA265
_RS21445
Exodeoxyribonuclease VII large subunit (
EC 3.1.11.6
)
No genes
Exodeoxyribonuclease VII small subunit (
EC 3.1.11.6
)
No genes
Exonuclease SbcC
No genes
Exonuclease SbcD
No genes
G:T/U mismatch-specific uracil/thymine DNA-glycosylase
No genes
Methyl-directed repair DNA adenine methylase (
EC 2.1.1.72
)
No genes
Methylated-DNA--protein-cysteine methyltransferase (
EC 2.1.1.63
)
CA265
_RS02300
CA265
_RS03455
RecA protein
CA265
_RS00600
Recombinational DNA repair protein RecT (prophage associated)
No genes
SOS-response repressor and protease LexA (
EC 3.4.21.88
)
No genes
Single-stranded DNA-binding protein
CA265
_RS02315
CA265
_RS22685
Very-short-patch mismatch repair endonuclease (G-T specific)
CA265
_RS20205
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
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 tracheiphila SCR3
Escherichia coli BL21
Escherichia coli BW25113
Escherichia coli ECOR27
Escherichia coli ECOR38
Escherichia coli ECRC101
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
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 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. RS175
Pseudomonas sp. S08-1
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
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
Variovorax sp. OAS795
Variovorax sp. SCN45
Vibrio cholerae E7946 ATCC 55056
Xanthomonas campestris pv. campestris strain 8004
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