Conservation of cofitness between PP_4002 and PP_4880 in Pseudomonas putida KT2440

89 genomes with putative orthologs of both genes

Organism Ratio1 Gene1 Name1 Description1 Ratio2 Gene2 Name2 Description2 Cofit Rank
Pseudomonas putida KT2440 1.0 PP_4002 DNA-dependent ATPase required for recombination 1.0 PP_4880 exoribonuclease R 0.27 9
Pseudomonas fluorescens FW300-N2E3 0.93 AO353_27640 recombination factor protein RarA 0.83 AO353_13200 exoribonuclease R low > 101
Pseudomonas fluorescens FW300-N1B4 0.92 Pf1N1B4_4062 FIG065221: Holliday junction DNA helicase 0.82 Pf1N1B4_1403 3'-to-5' exoribonuclease RNase R low > 87
Pseudomonas sp. RS175 0.92 PFR28_02606 Replication-associated recombination protein A 0.83 PFR28_05130 Ribonuclease R 0.25 23
Pseudomonas fluorescens FW300-N2C3 0.92 AO356_22185 recombination factor protein RarA 0.82 AO356_08610 exoribonuclease R 0.28 28
Pseudomonas fluorescens FW300-N2E2 0.91 Pf6N2E2_299 FIG065221: Holliday junction DNA helicase 0.82 Pf6N2E2_3607 3'-to-5' exoribonuclease RNase R low > 103
Pseudomonas fluorescens GW456-L13 0.91 PfGW456L13_2653 FIG065221: Holliday junction DNA helicase 0.83 PfGW456L13_144 3'-to-5' exoribonuclease RNase R low > 87
Pseudomonas syringae pv. syringae B728a 0.91 Psyr_3177 Recombination protein MgsA 0.81 Psyr_0579 RNAse R low > 86
Pseudomonas syringae pv. syringae B728a ΔmexB 0.91 Psyr_3177 Recombination protein MgsA 0.81 Psyr_0579 RNAse R low > 86
Pseudomonas simiae WCS417 0.91 PS417_16480 recombination factor protein RarA 0.81 PS417_02555 exoribonuclease R low > 88
Pseudomonas fluorescens SBW25-INTG 0.91 PFLU_RS18520 replication-associated recombination protein A 0.81 PFLU_RS02625 ribonuclease R low > 109
Pseudomonas fluorescens SBW25 0.91 PFLU_RS18520 replication-associated recombination protein A 0.81 PFLU_RS02625 ribonuclease R low > 109
Pseudomonas sp. S08-1 0.88 OH686_00270 Replication-associated recombination protein RarA 0.78 OH686_15910 ribonuclease R low > 80
Pseudomonas stutzeri RCH2 0.86 Psest_2034 ATPase related to the helicase subunit of the Holliday junction resolvase 0.75 Psest_0691 ribonuclease R 0.22 12
Kangiella aquimarina DSM 16071 0.68 B158DRAFT_1819 ATPase related to the helicase subunit of the Holliday junction resolvase 0.45 B158DRAFT_1989 ribonuclease R low > 40
Marinobacter adhaerens HP15 0.64 HP15_1817 recombination factor protein RarA 0.47 HP15_622 exoribonuclease R low > 73
Rahnella sp. WP5 0.60 EX31_RS18515 replication-associated recombination protein A 0.46 EX31_RS08785 ribonuclease R low > 89
Klebsiella michiganensis M5al 0.60 BWI76_RS09670 recombination factor protein RarA 0.45 BWI76_RS02575 exoribonuclease R low > 92
Enterobacter asburiae PDN3 0.60 EX28DRAFT_2040 ATPase related to the helicase subunit of the Holliday junction resolvase 0.45 EX28DRAFT_3376 ribonuclease R low > 76
Serratia liquefaciens MT49 0.59 IAI46_08570 replication-associated recombination protein A 0.45 IAI46_01660 ribonuclease R low > 86
Shewanella sp. ANA-3 0.59 Shewana3_2052 recombination factor protein RarA (RefSeq) 0.45 Shewana3_0697 RNAse R (RefSeq) low > 73
Shewanella loihica PV-4 0.59 Shew_2022 recombination factor protein RarA (RefSeq) 0.45 Shew_3289 ribonuclease R (RefSeq) low > 60
Enterobacter sp. TBS_079 0.59 MPMX20_01554 Replication-associated recombination protein A 0.45 MPMX20_00460 Ribonuclease R low > 85
Vibrio cholerae E7946 ATCC 55056 0.59 CSW01_05630 replication-associated recombination protein A 0.45 CSW01_13155 ribonuclease R low > 62
Erwinia tracheiphila SCR3 0.59 LU632_RS09755 replication-associated recombination protein A 0.46 LU632_RS21750 rnr ribonuclease R low > 74
Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 0.59 GFF4896 FIG065221: Holliday junction DNA helicase 0.45 GFF832 '3'-to-5' exoribonuclease RNase R' transl_table=11 low > 78
Shewanella oneidensis MR-1 0.59 SO2308 ATPase, AAA family (NCBI ptt file) 0.44 SO3935 vacB ribonuclease R (NCBI ptt file) low > 76
Escherichia coli ECOR38 0.59 HEPCGN_22950 rarA replication-associated recombination protein RarA 0.45 HEPCGN_10450 rnr ribonuclease R low > 85
Cupriavidus basilensis FW507-4G11 0.59 RR42_RS04355 recombination factor protein RarA 0.43 RR42_RS13065 ribonuclease R low > 128
Escherichia coli ECRC99 0.59 KEDOAH_22175 rarA replication-associated recombination protein RarA 0.45 KEDOAH_15935 rnr ribonuclease R — —
Escherichia coli ECRC101 0.59 MCAODC_24950 rarA replication-associated recombination protein RarA 0.45 MCAODC_02735 rnr ribonuclease R — —
Escherichia coli BL21 0.59 ECD_00896 recombination intermediate processing DNA-dependent ATPase 0.45 ECD_04046 exoribonuclease R, RNase R low > 60
Escherichia coli ECOR27 0.59 NOLOHH_22130 rarA replication-associated recombination protein RarA 0.45 NOLOHH_04485 rnr ribonuclease R low > 57
Escherichia coli ECRC101 0.59 OKFHMN_05560 rarA replication-associated recombination protein RarA 0.45 OKFHMN_12220 rnr ribonuclease R — —
Escherichia coli Nissle 1917 0.59 ECOLIN_RS04745 replication-associated recombination protein RarA 0.45 ECOLIN_RS24265 ribonuclease R low > 52
Escherichia fergusonii Becca 0.59 EFB2_03169 Replication-associated recombination protein A 0.45 EFB2_04356 Ribonuclease R low > 86
Escherichia coli ECRC98 0.59 JDDGAC_09370 rarA replication-associated recombination protein RarA 0.45 JDDGAC_15860 rnr ribonuclease R — —
Escherichia coli HS(pFamp)R (ATCC 700891) 0.59 OHPLBJKB_02776 Replication-associated recombination protein A 0.45 OHPLBJKB_03863 Ribonuclease R low > 73
Escherichia coli BW25113 0.59 b0892 ycaJ recombination protein (NCBI) 0.45 b4179 vacB putative enzyme (VIMSS) low > 76
Escherichia coli ECRC102 0.59 NIAGMN_03280 rarA replication-associated recombination protein RarA 0.45 NIAGMN_10070 rnr ribonuclease R — —
Pantoea sp. MT58 0.59 IAI47_12900 replication-associated recombination protein A 0.46 IAI47_02625 ribonuclease R low > 76
Escherichia coli ECRC62 0.59 BNILDI_20385 rarA replication-associated recombination protein RarA 0.45 BNILDI_07005 rnr ribonuclease R — —
Dickeya dadantii 3937 0.58 DDA3937_RS09605 replication-associated recombination protein A 0.45 DDA3937_RS17260 ribonuclease R low > 74
Dickeya dianthicola 67-19 0.58 HGI48_RS09620 replication-associated recombination protein A 0.45 HGI48_RS17315 ribonuclease R low > 71
Paraburkholderia sabiae LMG 24235 0.58 QEN71_RS03415 replication-associated recombination protein A 0.41 QEN71_RS22925 ribonuclease R low > 153
Dickeya dianthicola ME23 0.58 DZA65_RS09930 replication-associated recombination protein A 0.45 DZA65_RS18405 ribonuclease R low > 75
Ralstonia sp. UNC404CL21Col 0.58 ABZR87_RS16030 replication-associated recombination protein A 0.41 ABZR87_RS10985 ribonuclease R low > 80
Paraburkholderia graminis OAS925 0.58 ABIE53_001292 putative ATPase 0.41 ABIE53_001940 ribonuclease R 0.19 101
Pectobacterium carotovorum WPP14 0.58 HER17_RS12345 replication-associated recombination protein A 0.45 HER17_RS03835 ribonuclease R low > 75
Shewanella amazonensis SB2B 0.58 Sama_1774 recombination factor protein RarA (RefSeq) 0.43 Sama_3067 exoribonuclease II (RefSeq) low > 62
Ralstonia solanacearum PSI07 0.58 RPSI07_RS13205 replication-associated recombination protein A 0.42 RPSI07_RS18030 ribonuclease R low > 81
Burkholderia phytofirmans PsJN 0.57 BPHYT_RS05100 ATPase AAA 0.41 BPHYT_RS08455 ribonuclease R low > 109
Ralstonia solanacearum IBSBF1503 0.57 RALBFv3_RS04145 replication-associated recombination protein A 0.41 RALBFv3_RS15345 ribonuclease R low > 76
Ralstonia solanacearum UW163 0.57 UW163_RS09525 replication-associated recombination protein A 0.41 UW163_RS12810 ribonuclease R — —
Dechlorosoma suillum PS 0.56 Dsui_1694 AAA ATPase 0.44 Dsui_3128 ribonuclease R low > 51
Paraburkholderia bryophila 376MFSha3.1 0.56 H281DRAFT_00180 Recombination protein MgsA 0.41 H281DRAFT_00712 RNAse R low > 103
Herbaspirillum seropedicae SmR1 0.56 HSERO_RS09515 ATPase AAA 0.41 HSERO_RS09290 ribonuclease R 0.25 19
Ralstonia solanacearum GMI1000 0.56 RS_RS11735 replication-associated recombination protein A 0.42 RS_RS06155 ribonuclease R low > 80
Castellaniella sp019104865 MT123 0.55 ABCV34_RS07220 replication-associated recombination protein A 0.38 ABCV34_RS06625 ribonuclease R low > 48
Xanthomonas campestris pv. campestris strain 8004 0.55 Xcc-8004.2744.1 FIG065221: Holliday junction DNA helicase 0.38 Xcc-8004.3370.1 3'-to-5' exoribonuclease RNase R low > 74
Alteromonas macleodii MIT1002 0.54 MIT1002_02178 Replication-associated recombination protein A 0.45 MIT1002_03606 Ribonuclease R low > 70
Variovorax sp. SCN45 0.54 GFF6034 Replication-associated recombination protein RarA 0.37 GFF399 3'-to-5' exoribonuclease RNase R low > 127
Variovorax sp. OAS795 0.54 ABID97_RS07835 replication-associated recombination protein A 0.38 ABID97_RS17200 ribonuclease R low > 91
Acidovorax sp. GW101-3H11 0.53 Ac3H11_1696 FIG065221: Holliday junction DNA helicase 0.38 Ac3H11_412 3'-to-5' exoribonuclease RNase R low > 79
Rhodanobacter sp. FW510-T8 0.53 OKGIIK_07580 rarA recombination factor protein RarA 0.39 OKGIIK_06755 rnr ribonuclease R low > 52
Rhodanobacter denitrificans FW104-10B01 0.53 LRK54_RS17320 replication-associated recombination protein A 0.39 LRK54_RS00495 ribonuclease R low > 59
Dyella japonica UNC79MFTsu3.2 0.53 ABZR86_RS01825 replication-associated recombination protein A 0.39 ABZR86_RS08270 ribonuclease R low > 74
Rhodanobacter denitrificans MT42 0.53 LRK55_RS17545 replication-associated recombination protein A 0.39 LRK55_RS00235 ribonuclease R low > 63
Lysobacter sp. OAE881 0.52 ABIE51_RS11445 replication-associated recombination protein A 0.38 ABIE51_RS07475 ribonuclease R low > 62
Azospirillum brasilense Sp245 0.48 AZOBR_RS06885 ATPase AAA 0.24 AZOBR_RS16165 ribonuclease R low > 97
Phaeobacter inhibens DSM 17395 0.48 PGA1_c01930 replication-associated recombination protein A 0.20 PGA1_c36430 putative ribonuclease R low > 62
Sinorhizobium meliloti 1021 0.47 SMc01279 recombination factor protein RarA 0.23 SMc01365 exoribonuclease II protein low > 103
Brevundimonas sp. GW460-12-10-14-LB2 0.47 A4249_RS07890 replication-associated recombination protein A 0.20 A4249_RS08325 ribonuclease R low > 48
Agrobacterium fabrum C58 0.47 Atu1914 ATPase, AAA family protein 0.23 Atu1303 exoribonuclease low > 89
Azospirillum sp. SherDot2 0.47 MPMX19_01528 Replication-associated recombination protein A 0.22 MPMX19_01812 Ribonuclease R low > 112
Rhizobium sp. OAE497 0.47 ABIE40_RS08045 replication-associated recombination protein A 0.23 ABIE40_RS07350 ribonuclease R low > 107
Magnetospirillum magneticum AMB-1 0.46 AMB_RS17620 replication-associated recombination protein A 0.23 AMB_RS04465 ribonuclease R low > 64
Rhodopseudomonas palustris CGA009 0.46 TX73_016655 replication-associated recombination protein A 0.21 TX73_016160 ribonuclease R low > 86
Hydrogenophaga sp. GW460-11-11-14-LB1 0.46 GFF777 FIG065221: Holliday junction DNA helicase 0.35 GFF4921 3'-to-5' exoribonuclease RNase R low > 90
Dinoroseobacter shibae DFL-12 0.45 Dshi_0313 AAA ATPase central domain protein (RefSeq) 0.17 Dshi_0015 ribonuclease R (RefSeq) low > 64
Rhodospirillum rubrum S1H 0.45 Rru_A2660 AAA ATPase, central region (NCBI) 0.23 Rru_A3203 ribonuclease R (NCBI) low > 58
Caulobacter crescentus NA1000 0.45 CCNA_01342 ATPase, AAA family 0.21 CCNA_02537 ribonuclease R low > 66
Caulobacter crescentus NA1000 Δfur 0.45 CCNA_01342 ATPase, AAA family 0.21 CCNA_02537 ribonuclease R low > 67
Bosea sp. OAE506 0.44 ABIE41_RS14690 replication-associated recombination protein A 0.19 ABIE41_RS18140 ribonuclease R low > 77
Pedobacter sp. GW460-11-11-14-LB5 0.42 CA265_RS22400 AAA family ATPase 0.20 CA265_RS10530 ribonuclease R low > 88
Parabacteroides merdae CL09T00C40 0.42 HMPREF1078_RS15395 replication-associated recombination protein A 0.21 HMPREF1078_RS05885 ribonuclease R low > 61
Pontibacter actiniarum KMM 6156, DSM 19842 0.41 CA264_02215 AAA family ATPase 0.21 CA264_17355 ribonuclease R low > 74
Echinicola vietnamensis KMM 6221, DSM 17526 0.41 Echvi_4603 ATPase related to the helicase subunit of the Holliday junction resolvase 0.21 Echvi_0669 ribonuclease R — —
Acinetobacter radioresistens SK82 0.40 MPMX26_02987 Replication-associated recombination protein A 0.35 MPMX26_02684 Ribonuclease R low > 36
Desulfovibrio vulgaris Hildenborough JW710 0.33 DVU1686 ATPase, AAA family (TIGR) 0.23 DVU2467 rnr ribonuclease R (TIGR) low > 55

Not shown: 10 genomes with orthologs for PP_4002 only; 2 genomes with orthologs for PP_4880 only