Conservation of cofitness between PP_4002 and PP_1994 in Pseudomonas putida KT2440

98 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_1994 tRNA pseudouridine (38-40)synthase 0.25 15
Pseudomonas fluorescens FW300-N2E3 0.93 AO353_27640 recombination factor protein RarA 0.77 AO353_20660 pseudouridine synthase low > 101
Pseudomonas fluorescens FW300-N1B4 0.92 Pf1N1B4_4062 FIG065221: Holliday junction DNA helicase 0.78 Pf1N1B4_7 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 87
Pseudomonas sp. RS175 0.92 PFR28_02606 Replication-associated recombination protein A 0.78 PFR28_02817 tRNA pseudouridine synthase A low > 88
Pseudomonas fluorescens FW300-N2C3 0.92 AO356_22185 recombination factor protein RarA 0.76 AO356_21435 pseudouridine synthase low > 104
Pseudomonas fluorescens FW300-N2E2 0.91 Pf6N2E2_299 FIG065221: Holliday junction DNA helicase 0.78 Pf6N2E2_70 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 103
Pseudomonas fluorescens GW456-L13 0.91 PfGW456L13_2653 FIG065221: Holliday junction DNA helicase 0.79 PfGW456L13_3941 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 87
Pseudomonas syringae pv. syringae B728a ΔmexB 0.91 Psyr_3177 Recombination protein MgsA 0.78 Psyr_1662 tRNA pseudouridine synthase low > 86
Pseudomonas syringae pv. syringae B728a 0.91 Psyr_3177 Recombination protein MgsA 0.78 Psyr_1662 tRNA pseudouridine synthase low > 86
Pseudomonas simiae WCS417 0.91 PS417_16480 recombination factor protein RarA 0.76 PS417_18565 pseudouridine synthase — —
Pseudomonas fluorescens SBW25 0.91 PFLU_RS18520 replication-associated recombination protein A 0.76 PFLU_RS20545 tRNA pseudouridine(38-40) synthase TruA low > 109
Pseudomonas fluorescens SBW25-INTG 0.91 PFLU_RS18520 replication-associated recombination protein A 0.76 PFLU_RS20545 tRNA pseudouridine(38-40) synthase TruA low > 109
Pseudomonas sp. S08-1 0.88 OH686_00270 Replication-associated recombination protein RarA 0.71 OH686_04450 tRNA pseudouridine(38-40) synthase 0.75 15
Pseudomonas stutzeri RCH2 0.86 Psest_2034 ATPase related to the helicase subunit of the Holliday junction resolvase 0.70 Psest_2585 pseudouridylate synthase I low > 67
Kangiella aquimarina DSM 16071 0.68 B158DRAFT_1819 ATPase related to the helicase subunit of the Holliday junction resolvase 0.50 B158DRAFT_1483 pseudouridylate synthase I low > 40
Marinobacter adhaerens HP15 0.64 HP15_1817 recombination factor protein RarA 0.50 HP15_1829 tRNA pseudouridine synthase A low > 73
Rahnella sp. WP5 0.60 EX31_RS18515 replication-associated recombination protein A 0.53 EX31_RS19600 tRNA pseudouridine(38-40) synthase TruA low > 89
Klebsiella michiganensis M5al 0.60 BWI76_RS09670 recombination factor protein RarA 0.54 BWI76_RS20380 tRNA pseudouridine(38-40) synthase TruA low > 92
Enterobacter asburiae PDN3 0.60 EX28DRAFT_2040 ATPase related to the helicase subunit of the Holliday junction resolvase 0.54 EX28DRAFT_0286 tRNA pseudouridine(38-40) synthase low > 76
Shewanella sp. ANA-3 0.59 Shewana3_2052 recombination factor protein RarA (RefSeq) 0.53 Shewana3_1479 truA tRNA pseudouridine synthase A (RefSeq) low > 73
Serratia liquefaciens MT49 0.59 IAI46_08570 replication-associated recombination protein A 0.53 IAI46_17840 tRNA pseudouridine(38-40) synthase TruA low > 86
Shewanella loihica PV-4 0.59 Shew_2022 recombination factor protein RarA (RefSeq) 0.52 Shew_2306 tRNA pseudouridine synthase A (RefSeq) — —
Enterobacter sp. TBS_079 0.59 MPMX20_01554 Replication-associated recombination protein A 0.54 MPMX20_03253 tRNA pseudouridine synthase A low > 85
Vibrio cholerae E7946 ATCC 55056 0.59 CSW01_05630 replication-associated recombination protein A 0.52 CSW01_05090 tRNA pseudouridine(38-40) synthase TruA low > 62
Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 0.59 GFF4896 FIG065221: Holliday junction DNA helicase 0.54 GFF1934 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 78
Erwinia tracheiphila SCR3 0.59 LU632_RS09755 replication-associated recombination protein A 0.51 LU632_RS07825 truA tRNA pseudouridine(38-40) synthase TruA — —
Escherichia coli BW25113 0.59 b0892 ycaJ recombination protein (NCBI) 0.53 b2318 truA tRNA pseudouridine synthase A (NCBI) low > 76
Escherichia coli Nissle 1917 0.59 ECOLIN_RS04745 replication-associated recombination protein RarA 0.53 ECOLIN_RS13435 tRNA pseudouridine(38-40) synthase TruA low > 52
Escherichia coli HS(pFamp)R (ATCC 700891) 0.59 OHPLBJKB_02776 Replication-associated recombination protein A 0.53 OHPLBJKB_01387 tRNA pseudouridine synthase A low > 73
Cupriavidus basilensis FW507-4G11 0.59 RR42_RS04355 recombination factor protein RarA 0.38 RR42_RS14370 tRNA pseudouridine synthase A — —
Escherichia coli BL21 0.59 ECD_00896 recombination intermediate processing DNA-dependent ATPase 0.53 ECD_02243 tRNA pseudouridine(38-40) synthase — —
Escherichia fergusonii Becca 0.59 EFB2_03169 Replication-associated recombination protein A 0.53 EFB2_01540 tRNA pseudouridine synthase A low > 86
Escherichia coli ECOR27 0.59 NOLOHH_22130 rarA replication-associated recombination protein RarA 0.53 NOLOHH_14305 truA tRNA pseudouridine(38-40) synthase TruA low > 57
Escherichia coli ECRC99 0.59 KEDOAH_22175 rarA replication-associated recombination protein RarA 0.53 KEDOAH_05525 truA aspartate-semialdehyde dehydrogenase — —
Escherichia coli ECRC101 0.59 OKFHMN_05560 rarA replication-associated recombination protein RarA 0.53 OKFHMN_22670 truA aspartate-semialdehyde dehydrogenase — —
Escherichia coli ECOR38 0.59 HEPCGN_22950 rarA replication-associated recombination protein RarA 0.53 HEPCGN_21875 truA aspartate-semialdehyde dehydrogenase low > 85
Escherichia coli ECRC101 0.59 MCAODC_24950 rarA replication-associated recombination protein RarA 0.53 MCAODC_13710 truA aspartate-semialdehyde dehydrogenase — —
Escherichia coli ECRC98 0.59 JDDGAC_09370 rarA replication-associated recombination protein RarA 0.53 JDDGAC_26630 truA aspartate-semialdehyde dehydrogenase — —
Escherichia coli ECRC102 0.59 NIAGMN_03280 rarA replication-associated recombination protein RarA 0.53 NIAGMN_20445 truA aspartate-semialdehyde dehydrogenase — —
Escherichia coli ECRC62 0.59 BNILDI_20385 rarA replication-associated recombination protein RarA 0.53 BNILDI_13225 truA tRNA pseudouridine(38-40) synthase TruA — —
Pantoea sp. MT58 0.59 IAI47_12900 replication-associated recombination protein A 0.50 IAI47_06245 tRNA pseudouridine(38-40) synthase TruA low > 76
Dickeya dadantii 3937 0.58 DDA3937_RS09605 replication-associated recombination protein A 0.51 DDA3937_RS14465 tRNA pseudouridine(38-40) synthase TruA low > 74
Paraburkholderia sabiae LMG 24235 0.58 QEN71_RS03415 replication-associated recombination protein A 0.47 QEN71_RS17635 tRNA pseudouridine(38-40) synthase TruA low > 153
Dickeya dianthicola 67-19 0.58 HGI48_RS09620 replication-associated recombination protein A 0.51 HGI48_RS14435 tRNA pseudouridine(38-40) synthase TruA low > 71
Dickeya dianthicola ME23 0.58 DZA65_RS09930 replication-associated recombination protein A 0.51 DZA65_RS15370 tRNA pseudouridine(38-40) synthase TruA low > 75
Ralstonia sp. UNC404CL21Col 0.58 ABZR87_RS16030 replication-associated recombination protein A 0.41 ABZR87_RS14510 tRNA pseudouridine(38-40) synthase TruA low > 80
Paraburkholderia graminis OAS925 0.58 ABIE53_001292 putative ATPase 0.45 ABIE53_004807 tRNA pseudouridine38-40 synthase low > 113
Pectobacterium carotovorum WPP14 0.58 HER17_RS12345 replication-associated recombination protein A 0.54 HER17_RS06990 tRNA pseudouridine(38-40) synthase TruA low > 75
Shewanella amazonensis SB2B 0.58 Sama_1774 recombination factor protein RarA (RefSeq) 0.53 Sama_2150 truA tRNA pseudouridine synthase A (RefSeq) low > 62
Ralstonia solanacearum PSI07 0.58 RPSI07_RS13205 replication-associated recombination protein A 0.42 RPSI07_RS14720 tRNA pseudouridine(38-40) synthase TruA low > 81
Burkholderia phytofirmans PsJN 0.57 BPHYT_RS05100 ATPase AAA 0.46 BPHYT_RS33885 tRNA pseudouridine synthase A low > 109
Ralstonia solanacearum IBSBF1503 0.57 RALBFv3_RS04145 replication-associated recombination protein A 0.41 RALBFv3_RS02595 tRNA pseudouridine(38-40) synthase TruA — —
Ralstonia solanacearum UW163 0.57 UW163_RS09525 replication-associated recombination protein A 0.41 UW163_RS11130 tRNA pseudouridine(38-40) synthase TruA — —
Dechlorosoma suillum PS 0.56 Dsui_1694 AAA ATPase 0.46 Dsui_3194 pseudouridylate synthase I low > 51
Paraburkholderia bryophila 376MFSha3.1 0.56 H281DRAFT_00180 Recombination protein MgsA 0.46 H281DRAFT_06069 tRNA pseudouridine38-40 synthase low > 103
Herbaspirillum seropedicae SmR1 0.56 HSERO_RS09515 ATPase AAA 0.43 HSERO_RS16485 tRNA pseudouridine synthase A low > 78
Ralstonia solanacearum GMI1000 0.56 RS_RS11735 replication-associated recombination protein A 0.42 RS_RS09975 tRNA pseudouridine(38-40) synthase TruA low > 80
Castellaniella sp019104865 MT123 0.55 ABCV34_RS07220 replication-associated recombination protein A 0.41 ABCV34_RS04265 tRNA pseudouridine(38-40) synthase TruA low > 48
Xanthomonas campestris pv. campestris strain 8004 0.55 Xcc-8004.2744.1 FIG065221: Holliday junction DNA helicase 0.40 Xcc-8004.1961.1 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 74
Alteromonas macleodii MIT1002 0.54 MIT1002_02178 Replication-associated recombination protein A 0.50 MIT1002_02529 tRNA pseudouridine synthase A low > 70
Variovorax sp. SCN45 0.54 GFF6034 Replication-associated recombination protein RarA 0.40 GFF3885 tRNA pseudouridine(38-40) synthase (EC 5.4.99.12) low > 127
Variovorax sp. OAS795 0.54 ABID97_RS07835 replication-associated recombination protein A 0.39 ABID97_RS08440 tRNA pseudouridine(38-40) synthase TruA low > 91
Acidovorax sp. GW101-3H11 0.53 Ac3H11_1696 FIG065221: Holliday junction DNA helicase 0.42 Ac3H11_1532 tRNA pseudouridine synthase A (EC 4.2.1.70) low > 79
Rhodanobacter sp. FW510-T8 0.53 OKGIIK_07580 rarA recombination factor protein RarA 0.39 OKGIIK_04830 truA tRNA pseudouridine(38-40) synthase TruA — —
Rhodanobacter denitrificans FW104-10B01 0.53 LRK54_RS17320 replication-associated recombination protein A 0.40 LRK54_RS01700 tRNA pseudouridine(38-40) synthase TruA low > 59
Dyella japonica UNC79MFTsu3.2 0.53 ABZR86_RS01825 replication-associated recombination protein A 0.39 ABZR86_RS08015 tRNA pseudouridine(38-40) synthase TruA low > 74
Rhodanobacter denitrificans MT42 0.53 LRK55_RS17545 replication-associated recombination protein A 0.40 LRK55_RS01480 tRNA pseudouridine(38-40) synthase TruA low > 63
Lysobacter sp. OAE881 0.52 ABIE51_RS11445 replication-associated recombination protein A 0.41 ABIE51_RS08245 tRNA pseudouridine(38-40) synthase TruA low > 62
Azospirillum brasilense Sp245 0.48 AZOBR_RS06885 ATPase AAA 0.31 AZOBR_RS03570 tRNA pseudouridine synthase A — —
Phaeobacter inhibens DSM 17395 0.48 PGA1_c01930 replication-associated recombination protein A 0.28 PGA1_c05650 tRNA pseudouridine synthase A low > 62
Sinorhizobium meliloti 1021 0.47 SMc01279 recombination factor protein RarA 0.30 SMc01099 tRNA pseudouridine synthase A low > 103
Brevundimonas sp. GW460-12-10-14-LB2 0.47 A4249_RS07890 replication-associated recombination protein A 0.26 A4249_RS12340 tRNA pseudouridine(38-40) synthase TruA low > 48
Agrobacterium fabrum C58 0.47 Atu1914 ATPase, AAA family protein 0.29 Atu0368 tRNA pseudouridine synthase I low > 89
Azospirillum sp. SherDot2 0.47 MPMX19_01528 Replication-associated recombination protein A 0.31 MPMX19_02005 tRNA pseudouridine synthase A — —
Rhizobium sp. OAE497 0.47 ABIE40_RS08045 replication-associated recombination protein A 0.28 ABIE40_RS01915 tRNA pseudouridine(38-40) synthase TruA low > 107
Magnetospirillum magneticum AMB-1 0.46 AMB_RS17620 replication-associated recombination protein A 0.30 AMB_RS01225 tRNA pseudouridine(38-40) synthase TruA low > 64
Rhodopseudomonas palustris CGA009 0.46 TX73_016655 replication-associated recombination protein A 0.25 TX73_003225 tRNA pseudouridine(38-40) synthase TruA low > 86
Hydrogenophaga sp. GW460-11-11-14-LB1 0.46 GFF777 FIG065221: Holliday junction DNA helicase 0.42 GFF3357 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.63 45
Dinoroseobacter shibae DFL-12 0.45 Dshi_0313 AAA ATPase central domain protein (RefSeq) 0.26 Dshi_1938 tRNA pseudouridine synthase A (RefSeq) low > 64
Rhodospirillum rubrum S1H 0.45 Rru_A2660 AAA ATPase, central region (NCBI) 0.31 Rru_A3352 Pseudouridylate synthase (NCBI) — —
Caulobacter crescentus NA1000 0.45 CCNA_01342 ATPase, AAA family 0.28 CCNA_00280 tRNA pseudouridine synthase A low > 66
Caulobacter crescentus NA1000 Δfur 0.45 CCNA_01342 ATPase, AAA family 0.28 CCNA_00280 tRNA pseudouridine synthase A low > 67
Bosea sp. OAE506 0.44 ABIE41_RS14690 replication-associated recombination protein A 0.28 ABIE41_RS00165 tRNA pseudouridine(38-40) synthase TruA low > 77
Bacteroides ovatus ATCC 8483 0.43 BACOVA_03971 ATPase, AAA family 0.25 BACOVA_05075 tRNA pseudouridine synthase A low > 94
Bacteroides stercoris CC31F 0.42 HMPREF1181_RS16975 replication-associated recombination protein A 0.23 HMPREF1181_RS06250 tRNA pseudouridine(38-40) synthase TruA low > 56
Pedobacter sp. GW460-11-11-14-LB5 0.42 CA265_RS22400 AAA family ATPase 0.22 CA265_RS15580 tRNA pseudouridine(38-40) synthase TruA low > 88
Parabacteroides merdae CL09T00C40 0.42 HMPREF1078_RS15395 replication-associated recombination protein A 0.24 HMPREF1078_RS16085 tRNA pseudouridine(38-40) synthase TruA low > 61
Bacteroides thetaiotaomicron VPI-5482 0.42 BT1205 putative ATPase, AAA family (NCBI ptt file) 0.25 BT4237 tRNA pseudouridine synthase A (NCBI ptt file) low > 81
Mucilaginibacter yixingensis YX-36 DSM 26809 0.41 ABZR88_RS20285 replication-associated recombination protein A 0.22 ABZR88_RS21140 tRNA pseudouridine(38-40) synthase TruA low > 71
Phocaeicola dorei CL03T12C01 0.41 ABI39_RS20200 replication-associated recombination protein A 0.23 ABI39_RS12690 tRNA pseudouridine(38-40) synthase TruA low > 72
Phocaeicola vulgatus CL09T03C04 0.41 HMPREF1058_RS06440 replication-associated recombination protein A 0.23 HMPREF1058_RS16775 tRNA pseudouridine(38-40) synthase TruA low > 67
Pontibacter actiniarum KMM 6156, DSM 19842 0.41 CA264_02215 AAA family ATPase 0.25 CA264_17725 tRNA pseudouridine synthase A low > 74
Echinicola vietnamensis KMM 6221, DSM 17526 0.41 Echvi_4603 ATPase related to the helicase subunit of the Holliday junction resolvase 0.25 Echvi_1728 pseudouridylate synthase I 0.28 22
Acinetobacter radioresistens SK82 0.40 MPMX26_02987 Replication-associated recombination protein A 0.50 MPMX26_00352 tRNA pseudouridine synthase A 0.51 4
Bifidobacterium breve UCC2003 0.36 BBR_RS17330 replication-associated recombination protein A 0.16 BBR_RS18795 tRNA pseudouridine(38-40) synthase TruA low > 34
Mycobacterium tuberculosis H37Rv 0.35 Rv2559c Conserved hypothetical alanine leucine valine rich protein 0.20 Rv3455c Probable tRNA pseudouridine synthase a TruA (pseudouridylate synthase I) (pseudouridine synthase I) (uracil hydrolyase) — —
Fusobacterium nucleatum SB010 0.33 HUW76_02735 replication-associated recombination protein A 0.20 HUW76_09850 tRNA pseudouridine(38-40) synthase TruA 0.90 21
Desulfovibrio vulgaris Hildenborough JW710 0.33 DVU1686 ATPase, AAA family (TIGR) 0.21 DVU0911 truA tRNA pseudouridine synthase A (TIGR) low > 55
Desulfovibrio vulgaris Miyazaki F 0.32 DvMF_0339 recombination factor protein RarA (RefSeq) 0.19 DvMF_1395 truA tRNA pseudouridine synthase A (RefSeq) low > 51

Not shown: 1 genomes with orthologs for PP_4002 only; 2 genomes with orthologs for PP_1994 only