Table 3 Pfam RNA-binding domains. The Pfam RBDs and their corresponding occurrences in the GWS of 19 E. coli strains have been listed in this table. The Pfam domains listed are on the basis of Pfam database (v.28)
Pfam domain | Number of occurrences | Pfam domain | Number of occurrences |
|---|---|---|---|
DEAD | 250 | MnmE_helical | 19 |
S1 | 247 | RNA_pol_Rpb2_7 | 19 |
GTP_EFTU | 168 | tRNA-synt_2e | 19 |
GTP_EFTU_D2 | 168 | Ribosomal_L11_N | 19 |
HOK_GEF | 160 | KilA-N | 19 |
S4 | 152 | Ribosomal_S4 | 19 |
PseudoU_synth_2 | 150 | RTC | 19 |
CSD | 133 | Ribosomal_L2 | 19 |
SpoU_methylase | 114 | DnaB_bind | 19 |
tRNA_anti-codon | 113 | IPPT | 19 |
RNase_T | 99 | IF3_C | 19 |
tRNA-synt_1 | 95 | UPF0020 | 19 |
tRNA-synt_2 | 94 | RNA_pol_A_bac | 19 |
Ribonuc_L-PSP | 91 | RNA_pol_Rpb1_3 | 19 |
PRD | 90 | Se-cys_synth_N | 19 |
Anticodon_1 | 76 | RimM | 19 |
Formyl_trans_N | 75 | Val_tRNA-synt_C | 19 |
Aconitase | 75 | TruB_C_2 | 19 |
RF-1 | 70 | RNA_pol_Rpb1_4 | 19 |
tRNA-synt_1c | 58 | dsrm | 19 |
RNase_PH | 57 | RNA_pol_Rpb2_1 | 19 |
RNase_PH_C | 57 | Rho_N | 19 |
Dus | 57 | CheR | 19 |
HGTP_anticodon | 57 | SHS2_FTSA | 19 |
tRNA-synt_2b | 57 | Helicase_RecD | 19 |
tRNA_bind | 56 | RNA_pol_Rpb6 | 19 |
Sua5_yciO_yrdC | 56 | RNA_pol_Rpb2_6 | 19 |
tRNA_U5-meth_tr | 56 | SpoU_methylas_C | 19 |
zf-FPG_IleRS | 55 | Trm112p | 19 |
Ldr_toxin | 52 | RNA_pol_Rpb1_1 | 19 |
RtcB | 50 | CsrA | 19 |
CorA | 46 | Ribosomal_S20p | 19 |
MazE_antitoxin | 44 | TruB-C_2 | 19 |
ProQ | 41 | DALR_2 | 19 |
DbpA | 39 | IF-2 | 19 |
HA2 | 39 | tRNA_Me_trans | 19 |
PolyA_pol_RNAbd | 38 | KH_1 | 19 |
TruD | 38 | ABC1 | 19 |
IF2_N | 38 | tRNA-synt_1_2 | 19 |
PseudoU_synth_1 | 38 | PUA | 19 |
Methyltr_RsmF_N | 38 | CAT_RBD | 19 |
SpoU_sub_bind | 38 | PNPase | 19 |
SgrR_N | 38 | tRNA_m1G_MT | 19 |
tRNA_edit | 38 | SelB-wing_2 | 19 |
PolyA_pol | 38 | RNase_H | 19 |
FtsJ | 38 | PRC | 19 |
HRDC | 38 | Ribosomal_L18p | 19 |
tRNA-synt_1b | 38 | GIDA_assoc | 19 |
THUMP | 38 | RrnaAD | 19 |
DALR_1 | 38 | YjeF_N | 19 |
NusB | 38 | LigT_PEase | 19 |
RNase_E_G | 38 | Ub-RnfH | 19 |
ASCH | 37 | Nol1_Nop2_Fmu_2 | 19 |
DNA_pol_A_exo1 | 37 | RRF | 19 |
tRNA_SAD | 36 | B5 | 18 |
DHHA1 | 36 | FDX-ACB | 18 |
GTP_EFTU_D3 | 35 | GidB | 18 |
MqsA_antitoxin | 27 | Sigma70_r1_1 | 18 |
TGT | 21 | IF3_N | 18 |
RNA_pol_Rpb1_2 | 20 | B3_4 | 18 |
Queuosine_synth | 20 | tRNA-synt_2c | 17 |
RVT_1 | 20 | Colicin-DNase | 16 |
tRNA_synt_2f | 19 | PTS_2-RNA | 16 |
SelB-wing_3 | 19 | CRISPR_Cse1 | 14 |
Methyltrans_RNA | 19 | CRISPR_Cse2 | 14 |
Ribosomal_L11 | 19 | FinO_N | 13 |
CRS1_YhbY | 19 | PIN | 13 |
Tyr_Deacylase | 19 | GIIM | 11 |
Ribosomal_L4 | 19 | IlvGEDA_leader | 11 |
MutS_II | 19 | SymE_toxin | 11 |
RNA_pol_Rpb1_5 | 19 | PRTase_1 | 10 |
TilS | 19 | PELOTA_1 | 10 |
Endonuclease_1 | 19 | DNA_primase_S | 10 |
Ribosomal_L25p | 19 | IlvB_leader | 9 |
Sigma54_CBD | 19 | YafO_toxin | 8 |
RapA_C | 19 | MT-A70 | 8 |
TilS_C | 19 | RPAP2_Rtr1 | 6 |
OB_NTP_bind | 19 | TisB_toxin | 5 |
GlutR_dimer | 19 | MqsR_toxin | 5 |
RNA_pol_Rpb2_3 | 19 | Ibs_toxin | 5 |
RtcR | 19 | RNA_ligase | 4 |
TruB_N | 19 | N36 | 3 |
RsmJ | 19 | Cloacin | 3 |
tRNA_bind_2 | 19 | Colicin_D | 2 |
tRNA-synt_1c_C | 19 | Viral_helicase1 | 2 |
RNA_pol_Rpb2_45 | 19 | IF-2B | 1 |
HisG | 19 | Colicin_immun | 1 |
Rho_RNA_bind | 19 | RPOL_N | 1 |
PNPase_C | 19 | RNA_pol | 1 |
RNase_HII | 19 | RnlA_toxin | 1 |
RNA_pol_A_CTD | 19 | NYN | 1 |
RNA_pol_L | 19 | DUF3850 | 1 |
Rsd_AlgQ | 19 | Â | Â |