| Organism | Ratio1 | Gene1 | Name1 | Description1 | Ratio2 | Gene2 | Name2 | Description2 | Cofit | Rank |
|---|
| Rahnella sp. WP5 | 1.0 | EX31_RS07960 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 1.0 | EX31_RS12180 | | tRNA dihydrouridine synthase DusB | 0.68 | 5 |
| Serratia liquefaciens MT49 | 0.72 | IAI46_03595 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.95 | IAI46_22775 | | tRNA dihydrouridine synthase DusB | low | > 86 |
| Pectobacterium carotovorum WPP14 | 0.66 | HER17_RS04110 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.91 | HER17_RS20235 | | tRNA dihydrouridine synthase DusB | low | > 75 |
| Dickeya dianthicola 67-19 | 0.65 | HGI48_RS17075 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.92 | HGI48_RS01295 | | tRNA dihydrouridine synthase DusB | low | > 71 |
| Dickeya dadantii 3937 | 0.65 | DDA3937_RS17020 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.91 | DDA3937_RS01375 | | tRNA dihydrouridine synthase DusB | low | > 74 |
| Dickeya dianthicola ME23 | 0.64 | DZA65_RS18150 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.92 | DZA65_RS01355 | | tRNA dihydrouridine synthase DusB | low | > 75 |
| Enterobacter asburiae PDN3 | 0.61 | EX28DRAFT_2865 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.88 | EX28DRAFT_3313 | | putative TIM-barrel protein, nifR3 family | low | > 76 |
| Enterobacter sp. TBS_079 | 0.61 | MPMX20_03654 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.89 | MPMX20_04169 | | tRNA-dihydrouridine synthase B | low | > 85 |
| Pantoea sp. MT58 | 0.60 | IAI47_04115 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.87 | IAI47_02385 | | tRNA dihydrouridine synthase DusB | low | > 76 |
| Escherichia coli ECOR38 | 0.60 | HEPCGN_19495 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | HEPCGN_16505 | dusB | tRNA dihydrouridine synthase DusB | low | > 87 |
| Escherichia coli Nissle 1917 | 0.60 | ECOLIN_RS15520 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | ECOLIN_RS18725 | | tRNA dihydrouridine synthase DusB | low | > 55 |
| Escherichia coli HS(pFamp)R (ATCC 700891) | 0.60 | OHPLBJKB_00946 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.80 | OHPLBJKB_00445 | | putative tRNA-dihydrouridine synthase | low | > 73 |
| Escherichia coli BW25113 | 0.60 | b2785 | rumA | 23S rRNA (uracil-5-)-methyltransferase (NCBI) | 0.88 | b3260 | dusB | tRNA-dihydrouridine synthase B (NCBI) | low | > 76 |
| Escherichia coli ECRC102 | 0.60 | NIAGMN_18015 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | NIAGMN_15445 | dusB | tRNA dihydrouridine synthase DusB | — | — |
| Escherichia coli ECRC101 | 0.60 | MCAODC_10770 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | MCAODC_08205 | dusB | tRNA dihydrouridine synthase DusB | low | > 87 |
| Escherichia coli ECRC99 | 0.60 | KEDOAH_07885 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.81 | KEDOAH_10465 | dusB | tRNA dihydrouridine synthase DusB | — | — |
| Escherichia coli ECRC98 | 0.60 | JDDGAC_23910 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.81 | JDDGAC_21310 | dusB | tRNA dihydrouridine synthase DusB | low | > 86 |
| Escherichia coli ECRC100 | 0.60 | OKFHMN_20245 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | OKFHMN_17685 | dusB | tRNA dihydrouridine synthase DusB | low | > 80 |
| Escherichia coli ECOR27 | 0.59 | NOLOHH_12120 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | NOLOHH_09470 | dusB | tRNA dihydrouridine synthase DusB | low | > 75 |
| Escherichia coli ECRC62 | 0.59 | BNILDI_10625 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | BNILDI_02050 | dusB | tRNA dihydrouridine synthase DusB | low | > 75 |
| Escherichia fergusonii Becca | 0.59 | EFB2_01132 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.88 | EFB2_00564 | | tRNA-dihydrouridine synthase B | low | > 86 |
| Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 | 0.59 | GFF4838 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) | 0.79 | GFF2124 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 78 |
| Escherichia coli BL21 | 0.59 | ECD_02630 | | 23S rRNA m(5)U1939 methyltransferase, SAM-dependent | 0.88 | ECD_03118 | | tRNA-dihydrouridine synthase B | low | > 61 |
| Klebsiella michiganensis M5al | 0.59 | BWI76_RS22810 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase | 0.88 | BWI76_RS25565 | | tRNA dihydrouridine synthase DusB | — | — |
| Vibrio cholerae E7946 ATCC 55056 | 0.45 | CSW01_12410 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.68 | CSW01_01495 | | tRNA dihydrouridine synthase DusB | low | > 62 |
| Shewanella amazonensis SB2B | 0.41 | Sama_1032 | rumA | 23S rRNA 5-methyluridine methyltransferase (RefSeq) | 0.69 | Sama_3225 | | tRNA-dihydrouridine synthase B (RefSeq) | low | > 62 |
| Shewanella oneidensis MR-1 | 0.41 | SO3456 | | RNA methyltransferase, TrmA family (NCBI ptt file) | 0.64 | SO0394 | | conserved hypothetical protein (NCBI ptt file) | low | > 76 |
| Shewanella sp. ANA-3 | 0.41 | Shewana3_1110 | rumA | 23S rRNA 5-methyluridine methyltransferase (RefSeq) | 0.65 | Shewana3_0399 | | nifR3 family TIM-barrel protein (RefSeq) | low | > 73 |
| Shewanella loihica PV-4 | 0.40 | Shew_1201 | rumA | 23S rRNA 5-methyluridine methyltransferase (RefSeq) | 0.64 | Shew_0330 | | nifR3 family TIM-barrel protein (RefSeq) | low | > 60 |
| Kangiella aquimarina DSM 16071 | 0.36 | B158DRAFT_2275 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.65 | B158DRAFT_0164 | | tRNA-U20-dihydrouridine synthase | low | > 40 |
| Marinobacter adhaerens HP15 | 0.34 | HP15_790 | | 23S rRNA 5-methyluridine methyltransferase | 0.59 | HP15_3225 | | tRNA-dihydrouridine synthase B | low | > 73 |
| Dyella japonica UNC79MFTsu3.2 | 0.34 | ABZR86_RS07120 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.52 | ABZR86_RS11525 | | tRNA dihydrouridine synthase DusB | low | > 74 |
| Pseudomonas stutzeri RCH2 | 0.34 | Psest_1639 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.57 | Psest_1016 | | putative TIM-barrel protein, nifR3 family | low | > 67 |
| Rhodanobacter denitrificans MT42 | 0.33 | LRK55_RS16715 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.52 | LRK55_RS11875 | | tRNA dihydrouridine synthase DusB | low | > 63 |
| Acinetobacter radioresistens SK82 | 0.32 | MPMX26_00538 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.52 | MPMX26_02127 | | tRNA-dihydrouridine synthase B | low | > 36 |
| Pseudomonas sp. S08-1 | 0.32 | OH686_18955 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.59 | OH686_07610 | | tRNA-dihydrouridine synthase DusB | low | > 80 |
| Rhodanobacter denitrificans FW104-10B01 | 0.32 | LRK54_RS17000 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.52 | LRK54_RS12140 | | tRNA dihydrouridine synthase DusB | low | > 59 |
| Castellaniella sp019104865 MT123 | 0.32 | ABCV34_RS03050 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.53 | ABCV34_RS07960 | | tRNA dihydrouridine synthase DusB | low | > 48 |
| Rhodanobacter sp. FW510-T8 | 0.32 | OKGIIK_07840 | rlmD | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.52 | OKGIIK_11770 | dusB | tRNA dihydrouridine synthase DusB | low | > 52 |
| Pseudomonas fluorescens FW300-N2C3 | 0.31 | AO356_19055 | | 23S rRNA methyltransferase | 0.56 | AO356_08215 | | tRNA-dihydrouridine synthase B | low | > 104 |
| Pseudomonas sp. RS175 | 0.31 | PFR28_03224 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.55 | PFR28_05216 | | tRNA-dihydrouridine synthase B | low | > 88 |
| Pseudomonas fluorescens FW300-N2E2 | 0.31 | Pf6N2E2_5722 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) ## LSU rRNA m(5)U1939 | 0.55 | Pf6N2E2_3517 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 103 |
| Dechlorosoma suillum PS | 0.31 | Dsui_1981 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.53 | Dsui_1593 | | putative TIM-barrel protein, nifR3 family | low | > 51 |
| Pseudomonas fluorescens FW300-N1B4 | 0.31 | Pf1N1B4_3507 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) ## LSU rRNA m(5)U1939 | 0.55 | Pf1N1B4_1313 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 87 |
| Pseudomonas simiae WCS417 | 0.31 | PS417_20155 | | 23S rRNA methyltransferase | 0.54 | PS417_02950 | | tRNA-dihydrouridine synthase B | low | > 88 |
| Ralstonia solanacearum GMI1000 | 0.31 | RS_RS06055 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.55 | RS_RS02515 | | tRNA dihydrouridine synthase DusB | low | > 80 |
| Pseudomonas fluorescens SBW25-INTG | 0.31 | PFLU_RS22100 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.54 | PFLU_RS03025 | | tRNA dihydrouridine synthase DusB | low | > 109 |
| Pseudomonas fluorescens SBW25 | 0.31 | PFLU_RS22100 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.54 | PFLU_RS03025 | | tRNA dihydrouridine synthase DusB | 0.67 | 73 |
| Pseudomonas syringae pv. syringae B728a | 0.30 | Psyr_3696 | | 23S rRNA m(5)U-1939 methyltransferase | 0.55 | Psyr_4404 | | tRNA-U20-dihydrouridine synthase | low | > 86 |
| Pseudomonas syringae pv. syringae B728a ΔmexB | 0.30 | Psyr_3696 | | 23S rRNA m(5)U-1939 methyltransferase | 0.55 | Psyr_4404 | | tRNA-U20-dihydrouridine synthase | low | > 86 |
| Cupriavidus basilensis FW507-4G11 | 0.30 | RR42_RS13170 | | 23S rRNA methyltransferase | 0.54 | RR42_RS02730 | | tRNA-dihydrouridine synthase B | low | > 128 |
| Alteromonas macleodii MIT1002 | 0.30 | MIT1002_00793 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.70 | MIT1002_03957 | | putative tRNA-dihydrouridine synthase | low | > 70 |
| Ralstonia solanacearum UW163 | 0.30 | UW163_RS12710 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.56 | UW163_RS01890 | | tRNA dihydrouridine synthase DusB | — | — |
| Ralstonia solanacearum IBSBF1503 | 0.30 | RALBFv3_RS15245 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.56 | RALBFv3_RS11695 | | tRNA dihydrouridine synthase DusB | low | > 76 |
| Lysobacter sp. OAE881 | 0.30 | ABIE51_RS13830 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.56 | ABIE51_RS16450 | | tRNA dihydrouridine synthase DusB | low | > 62 |
| Ralstonia solanacearum PSI07 | 0.30 | RPSI07_RS18130 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.57 | RPSI07_RS21520 | | tRNA dihydrouridine synthase DusB | low | > 81 |
| Ralstonia sp. UNC404CL21Col | 0.30 | ABZR87_RS10885 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.56 | ABZR87_RS07650 | | tRNA dihydrouridine synthase DusB | low | > 80 |
| Pseudomonas fluorescens GW456-L13 | 0.30 | PfGW456L13_2033 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) ## LSU rRNA m(5)U1939 | 0.54 | PfGW456L13_55 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 87 |
| Herbaspirillum seropedicae SmR1 | 0.29 | HSERO_RS14825 | | 23S rRNA methyltransferase | 0.53 | HSERO_RS02050 | | tRNA-dihydrouridine synthase B | low | > 78 |
| Pseudomonas putida KT2440 | 0.29 | PP_1655 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.59 | PP_4820 | | tRNA-dihydrouridine synthase B | low | > 96 |
| Burkholderia phytofirmans PsJN | 0.29 | BPHYT_RS09125 | | 23S rRNA methyltransferase | 0.54 | BPHYT_RS16585 | | tRNA-dihydrouridine synthase B | low | > 109 |
| Paraburkholderia sabiae LMG 24235 | 0.29 | QEN71_RS22225 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.54 | QEN71_RS26770 | | tRNA dihydrouridine synthase DusB | low | > 153 |
| Pseudomonas fluorescens FW300-N2E3 | 0.29 | AO353_02715 | | 23S rRNA methyltransferase | 0.55 | AO353_13660 | | tRNA-dihydrouridine synthase B | low | > 101 |
| Paraburkholderia bryophila 376MFSha3.1 | 0.29 | H281DRAFT_00846 | | 23S rRNA m(5)U-1939 methyltransferase | 0.55 | H281DRAFT_04249 | | tRNA-U20-dihydrouridine synthase | low | > 103 |
| Hydrogenophaga sp. GW460-11-11-14-LB1 | 0.29 | GFF3883 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) | 0.48 | GFF634 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 90 |
| Acidovorax sp. GW101-3H11 | 0.28 | Ac3H11_2847 | | 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) | 0.52 | Ac3H11_3996 | | tRNA dihydrouridine synthase B (EC 1.-.-.-) | low | > 79 |
| Variovorax sp. SCN45 | 0.27 | GFF2841 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase (EC 2.1.1.190) | 0.54 | GFF2144 | | tRNA-dihydrouridine synthase DusB | low | > 127 |
| Synechococcus elongatus PCC 7942 | 0.19 | Synpcc7942_0241 | rumA | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.24 | Synpcc7942_0283 | | Dihydrouridine synthase TIM-barrel protein nifR3 | low | > 38 |
| Echinicola vietnamensis KMM 6221, DSM 17526 | 0.17 | Echvi_0172 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.29 | Echvi_1531 | | putative TIM-barrel protein, nifR3 family | 0.24 | 57 |
| Parabacteroides merdae CL09T00C40 | 0.17 | HMPREF1078_RS02375 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.31 | HMPREF1078_RS05375 | | tRNA dihydrouridine synthase DusB | low | > 61 |
| Desulfovibrio vulgaris Hildenborough JW710 | 0.17 | DVU0924 | rumA | 23S rRNA (uracil-5-)-methyltransferase RumA (TIGR) | 0.19 | DVU0661 | | dihydrouridine synthase family protein (TIGR) | low | > 55 |
| Phocaeicola vulgatus CL09T03C04 | 0.16 | HMPREF1058_RS03720 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.34 | HMPREF1058_RS10945 | | tRNA dihydrouridine synthase DusB | 0.74 | 55 |
| Dinoroseobacter shibae DFL-12 | 0.16 | Dshi_3492 | | (Uracil-5)-methyltransferase (RefSeq) | 0.31 | Dshi_1576 | | putative TIM-barrel protein, nifR3 family (RefSeq) | low | > 64 |
| Mucilaginibacter yixingensis YX-36 DSM 26809 | 0.16 | ABZR88_RS21250 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.31 | ABZR88_RS22340 | | tRNA dihydrouridine synthase DusB | low | > 71 |
| Phocaeicola dorei CL03T12C01 | 0.16 | ABI39_RS17490 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.34 | ABI39_RS06125 | | tRNA dihydrouridine synthase DusB | 0.34 | 38 |
| Pontibacter actiniarum KMM 6156, DSM 19842 | 0.16 | CA264_02005 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.31 | CA264_17860 | | tRNA dihydrouridine synthase DusB | low | > 74 |
| Fusobacterium nucleatum SB010 | 0.15 | HUW76_01255 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.27 | HUW76_04330 | | tRNA-dihydrouridine synthase | low | > 35 |
| Sinorhizobium meliloti 1021 | 0.15 | SMc00974 | | RNA methyltransferase | 0.35 | SMc01041 | | NIFR3-like protein | low | > 103 |
| Rhodopseudomonas palustris CGA009 | 0.15 | TX73_004885 | | methyltransferase | 0.34 | TX73_013410 | | tRNA dihydrouridine synthase DusB | low | > 86 |
| Bacteroides thetaiotaomicron VPI-5482 | 0.15 | BT0643 | | RNA methyltransferase (NCBI ptt file) | 0.33 | BT3073 | | putative TIM-barrel enzyme, possible dehydrogenase, contains a highly conserved dihydrouridine synthase domain (NCBI ptt file) | low | > 81 |
| Magnetospirillum magneticum AMB-1 | 0.15 | AMB_RS01660 | | class I SAM-dependent RNA methyltransferase | 0.42 | AMB_RS11940 | | tRNA dihydrouridine synthase DusB | low | > 64 |
| Bacteroides ovatus ATCC 8483 | 0.15 | BACOVA_02267 | | 23S rRNA (uracil-5-)-methyltransferase RumA | 0.33 | BACOVA_02724 | | TIM-barrel protein, nifR3 family | low | > 94 |
| Caulobacter crescentus NA1000 Δfur | 0.14 | CCNA_01387 | | tRNA (uracil-5-)-methyltransferase related protein | 0.28 | CCNA_01813 | | tRNA-dihydrouridine synthase | low | > 67 |
| Caulobacter crescentus NA1000 | 0.14 | CCNA_01387 | | tRNA (uracil-5-)-methyltransferase related protein | 0.28 | CCNA_01813 | | tRNA-dihydrouridine synthase | low | > 66 |
| Phaeobacter inhibens DSM 17395 | 0.14 | PGA1_c34810 | | putative RNA methyltransferase | 0.35 | PGA1_c14770 | | tRNA-dihydrouridine synthase DusB | low | > 62 |
| Azospirillum brasilense Sp245 | 0.14 | AZOBR_RS01195 | | RNA methyltransferase | 0.40 | AZOBR_RS14420 | | tRNA-dihydrouridine synthase | low | > 97 |
| Rhizobium sp. OAE497 | 0.13 | ABIE40_RS03880 | | class I SAM-dependent RNA methyltransferase | 0.34 | ABIE40_RS09080 | | tRNA dihydrouridine synthase DusB | low | > 107 |
| Agrobacterium fabrum C58 | 0.13 | Atu0735 | | RNA methyltransferase | 0.35 | Atu1444 | | nitrogen regulation protein | low | > 89 |
| Azospirillum sp. SherDot2 | 0.13 | MPMX19_02196 | | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | 0.41 | MPMX19_01110 | | tRNA-dihydrouridine synthase B | low | > 112 |
| Sphingomonas koreensis DSMZ 15582 | 0.12 | Ga0059261_0648 | | SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase | 0.38 | Ga0059261_0140 | | tRNA-U20-dihydrouridine synthase | low | > 68 |
| Rhodospirillum rubrum S1H | 0.12 | Rru_A2107 | | 23S rRNA (uracil-5-)-methyltransferase RumA (NCBI) | 0.34 | Rru_A1676 | | Dihydrouridine synthase TIM-barrel protein nifR3 (NCBI) | — | — |
| Brevundimonas sp. GW460-12-10-14-LB2 | 0.11 | A4249_RS08425 | | class I SAM-dependent RNA methyltransferase | 0.34 | A4249_RS04810 | | tRNA dihydrouridine synthase DusB | low | > 48 |
Not shown: 5 genomes with orthologs for EX31_RS07960 only; 5 genomes with orthologs for EX31_RS12180 only