+E Ribosome biogenesis KO
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Ribosome Biogenesis - Shewanella benthica
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AEukaryotic type
B Sno RNPs
C Box C/D snoRNPs
C Box H/ACA snoRNPs
B 90S particles
C U3 small nucleolar RNA-associated proteins
C Helicases
C GTPase
C RNase
D SHEWBE_1631 rnc; RNase III K03685 rnc; ribonuclease III [EC:3.1.26.3]
C Kinase
C Other 90S particles
B Pre-40S particles
C Kinases
D SHEWBE_4291 conserved protein of unknown function K07178 RIOK1; RIO kinase 1 [EC:2.7.11.1]
C Export and cytoplasmic maturation factors
C Other pre-40S particles
B Pre-60S particles
C Helicases
C GTPases
C RNases
D SHEWBE_1144 orn; oligoribonuclease K13288 orn; oligoribonuclease [EC:3.1.-.-]
D RNase MRP
C Kinases
C Export and cytoplasmic maturation factors
C 5-FMC complex
C Ribosome quality control proteins
C Other pre-60S particles
B Other ribosome biogenesis factors
C SHEWBE_1632 era; membrane-associated, 16S rRNA-binding GTPase K03595 era; GTPase
C SHEWBE_4226 obgE; GTPase involved in cell partioning and DNA repair K03979 obgE; GTPase [EC:3.6.5.-]
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AProkaryotic type
B Sno RNPs
C Box C/D snoRNPs
C Box H/ACA snoRNPs
B rRNA transcription factors
C SHEWBE_4341 conserved protein of unknown function, might belong to Transcriptional regulator, TraR/DksA family K06204 dksA; RNA polymerase-binding transcription factor
C SHEWBE_1252 dksA; DNA-binding transcriptional regulator of rRNA transcription, DnaK suppressor protein K06204 dksA; RNA polymerase-binding transcription factor
C SHEWBE_3932 nusA; transcription termination/antitermination L factor K02600 nusA; transcription termination/antitermination protein NusA
C SHEWBE_3851 nusB; transcription antitermination protein K03625 nusB; transcription antitermination protein NusB
C SHEWBE_0336 nusG; transcription antitermination protein K02601 nusG; transcription termination/antitermination protein NusG
B rRNA modification factors
C 16S rRNA modification factors
D SHEWBE_3872 rsuA; Ribosomal small subunit pseudouridine synthase A K06183 rsuA; 16S rRNA pseudouridine516 synthase [EC:5.4.99.19]
D SHEWBE_4072 rsuA; 16S rRNA pseudouridylate 516 synthase K06183 rsuA; 16S rRNA pseudouridine516 synthase [EC:5.4.99.19]
D SHEWBE_4189 rsuA; Ribosomal small subunit pseudouridine synthase A K06183 rsuA; 16S rRNA pseudouridine516 synthase [EC:5.4.99.19]
D SHEWBE_4317 putative ribosomal RNA pseudouridylate synthase K06183 rsuA; 16S rRNA pseudouridine516 synthase [EC:5.4.99.19]
D SHEWBE_4218 ksgA; S-adenosylmethionine-6-N',N'-adenosyl (rRNA) dimethyltransferase K02528 ksgA; 16S rRNA (adenine1518-N6/adenine1519-N6)-dimethyltransferase [EC:2.1.1.182]
D SHEWBE_2883 putative tRNA/rRNA cytosine-C5-methylase K03500 rsmB; 16S rRNA (cytosine967-C5)-methyltransferase [EC:2.1.1.176]
D SHEWBE_0623 rsmB; 16S rRNA m5C967 methyltransferase, S-adenosyl-L-methionine-dependent K03500 rsmB; 16S rRNA (cytosine967-C5)-methyltransferase [EC:2.1.1.176]
D SHEWBE_1809 putative NOL1/NOP2/sun family RNA methylase K03500 rsmB; 16S rRNA (cytosine967-C5)-methyltransferase [EC:2.1.1.176]
D SHEWBE_4367 rsmC; Ribosomal RNA small subunit methyltransferase C K00564 rsmC; 16S rRNA (guanine1207-N2)-methyltransferase [EC:2.1.1.172]
D SHEWBE_0789 Ribosomal RNA small subunit methyltransferase D K08316 rsmD; 16S rRNA (guanine966-N2)-methyltransferase [EC:2.1.1.171]
D SHEWBE_4360 yggJ; hypothetical protein K09761 rsmE; 16S rRNA (uracil1498-N3)-methyltransferase [EC:2.1.1.193]
D SHEWBE_3041 yebU; putative RNA AdoMet-dependent methyltransferase K11392 rsmF; 16S rRNA (cytosine1407-C5)-methyltransferase [EC:2.1.1.178]
D SHEWBE_0538 gidB; methyltransferase, SAM-dependent methyltransferase, glucose-inhibited cell-division protein K03501 gidB; 16S rRNA (guanine527-N7)-methyltransferase [EC:2.1.1.170]
D SHEWBE_0179 mraW; S-adenosyl-dependent methyltransferase activity on membrane-located substrates K03438 mraW; 16S rRNA (cytosine1402-N4)-methyltransferase [EC:2.1.1.199]
D SHEWBE_0893 yraL; putative methyltransferase K07056 rsmI; 16S rRNA (cytidine1402-2'-O)-methyltransferase [EC:2.1.1.198]
D SHEWBE_0731 yhiQ; putative SAM-dependent methyltransferase K15984 rsmJ; 16S rRNA (guanine1516-N2)-methyltransferase [EC:2.1.1.242]
C 23S rRNA modification factors
D SHEWBE_2425 rrmA; 23S rRNA m1G745 methyltransferase K00563 rlmA1; 23S rRNA (guanine745-N1)-methyltransferase [EC:2.1.1.187]
D SHEWBE_1575 putative Ribosomal RNA large subunit methyltransferase A K00563 rlmA1; 23S rRNA (guanine745-N1)-methyltransferase [EC:2.1.1.187]
D SHEWBE_1100 rlmB; 23S rRNA (Gm2251)-methyltransferase K03218 rlmB; 23S rRNA (guanosine2251-2'-O)-methyltransferase [EC:2.1.1.185]
D SHEWBE_3939 rrmJ; 23S rRNA methyltransferase K02427 rlmE; 23S rRNA (uridine2552-2'-O)-methyltransferase [EC:2.1.1.166]
D SHEWBE_0446 rlmF; Ribosomal RNA large subunit methyltransferase F K06970 rlmF; 23S rRNA (adenine1618-N6)-methyltransferase [EC:2.1.1.181]
D SHEWBE_3980 rlmG; Ribosomal RNA large subunit methyltransferase G K11391 rlmG; 23S rRNA (guanine1835-N2)-methyltransferase [EC:2.1.1.174]
D SHEWBE_4035 ybeA; conserved hypothetical protein K00783 rlmH; 23S rRNA (pseudouridine1915-N3)-methyltransferase [EC:2.1.1.177]
D SHEWBE_2488 yccW; putative AdoMet-dependent methyltransferase, UPF0064 family K06969 rlmI; 23S rRNA (cytosine1962-C5)-methyltransferase [EC:2.1.1.191]
D SHEWBE_3386 conserved protein of unknown function K06969 rlmI; 23S rRNA (cytosine1962-C5)-methyltransferase [EC:2.1.1.191]
D SHEWBE_1057 conserved protein of unknown function K06969 rlmI; 23S rRNA (cytosine1962-C5)-methyltransferase [EC:2.1.1.191]
D SHEWBE_0730 rlmJ; Ribosomal RNA large subunit methyltransferase J K07115 rlmJ; 23S rRNA (adenine2030-N6)-methyltransferase [EC:2.1.1.266]
D SHEWBE_2402 ycbY; Ribosomal RNA large subunit methyltransferase K/L [Includes: 23S rRNA m2G2445 methyltransferase; 23S rRNA m7G2069 methyltransferase] K12297 rlmKL; 23S rRNA (guanine2069-N7)-methyltransferase / 23S rRNA (guanine2445-N2)-methyltransferase [EC:2.1.1.264 2.1.1.173]
D SHEWBE_1842 ygdE; putative methyltransferase K06968 rlmM; 23S rRNA (cytidine2498-2'-O)-methyltransferase [EC:2.1.1.186]
D SHEWBE_3657 yfgB; putative Fe-S containing enzyme K06941 rlmN; 23S rRNA (adenine2503-C2)-methyltransferase [EC:2.1.1.192]
D SHEWBE_3843 rumA; 23S rRNA (uracil-5)-methyltransferase K03215 rumA; 23S rRNA (uracil1939-C5)-methyltransferase [EC:2.1.1.190]
D SHEWBE_2720 rluA; Ribosomal large subunit pseudouridine synthase A K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_3426 rluA; Ribosomal large subunit pseudouridine synthase A K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_4448 YabO/YceC/SfhB family protein K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_0409 Uncharacterized RNA pseudouridine synthase HI_0042 K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_1292 rluA; pseudouridine synthase for 23S rRNA (position 746) and tRNAphe(position 32) K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_1986 Ribosomal large subunit pseudouridine synthase A K06177 rluA; tRNA pseudouridine32 synthase / 23S rRNA pseudouridine746 synthase [EC:5.4.99.28 5.4.99.29]
D SHEWBE_3243 rluB; 23S rRNA pseudouridylate synthase K06178 rluB; 23S rRNA pseudouridine2605 synthase [EC:5.4.99.22]
D SHEWBE_3031 rluC; 23S rRNA pseudouridylate synthase K06179 rluC; 23S rRNA pseudouridine955/2504/2580 synthase [EC:5.4.99.24]
D SHEWBE_4066 rluD; 23S rRNA pseudouridine synthase K06180 rluD; 23S rRNA pseudouridine1911/1915/1917 synthase [EC:5.4.99.23]
D SHEWBE_2369 ymfC; 23S rRNA pseudouridine synthase K06181 rluE; 23S rRNA pseudouridine2457 synthase [EC:5.4.99.20]
D SHEWBE_1315 rluE; Ribosomal large subunit pseudouridine synthase E K06181 rluE; 23S rRNA pseudouridine2457 synthase [EC:5.4.99.20]
B ribosomal protein modification factors
C SHEWBE_3076 exported protein of unknown function K03789 rimI; [ribosomal protein S18]-alanine N-acetyltransferase [EC:2.3.1.266]
C SHEWBE_4045 Ribosomal-protein-alanine acetyltransferase K03789 rimI; [ribosomal protein S18]-alanine N-acetyltransferase [EC:2.3.1.266]
C SHEWBE_1649 rimM; 16S rRNA processing protein K02860 rimM; 16S rRNA processing protein RimM
C SHEWBE_3348 conserved protein of unknown function K09136 ycaO; ribosomal protein S12 methylthiotransferase accessory factor
C SHEWBE_4507 prmA; methylase for 50S ribosomal subunit protein L11 K02687 prmA; ribosomal protein L11 methyltransferase [EC:2.1.1.-]
C SHEWBE_2217 prmB; N5-glutamine methyltransferase K07320 prmB; ribosomal protein L3 glutamine methyltransferase [EC:2.1.1.298]
C SHEWBE_2365 ycfD; conserved hypothetical protein K18850 ycfD; 50S ribosomal protein L16 3-hydroxylase [EC:1.14.11.47]
C SHEWBE_2894 roxA; 50S ribosomal protein L16 3-hydroxylase K18850 ycfD; 50S ribosomal protein L16 3-hydroxylase [EC:1.14.11.47]
B rRNA processing factors
C SHEWBE_1631 rnc; RNase III K03685 rnc; ribonuclease III [EC:3.1.26.3]
C SHEWBE_3032 rne; fused ribonucleaseE: endoribonuclease; RNA-binding protein; RNA degradosome binding protein K08300 rne; ribonuclease E [EC:3.1.26.12]
C SHEWBE_0955 rng; ribonuclease G K08301 rng; ribonuclease G [EC:3.1.26.-]
C SHEWBE_1778 yqgF; Holliday junction resolvase K07447 ruvX; putative pre-16S rRNA nuclease [EC:3.1.-.-]
B rRNA helicases
C SHEWBE_1214 dbpA; ATP-dependent RNA helicase, specific for 23S rRNA K05591 dbpA; ATP-dependent RNA helicase DbpA [EC:5.6.2.6]
C SHEWBE_4421 deaD; ATP-dependent RNA helicase DeaD K05592 deaD; ATP-dependent RNA helicase DeaD [EC:5.6.2.7]
C SHEWBE_1467 srmB; ATP-dependent RNA helicase K05590 srmB; ATP-dependent RNA helicase SrmB [EC:5.6.2.7]
B GTPases
C SHEWBE_1632 era; membrane-associated, 16S rRNA-binding GTPase K03595 era; GTPase
C SHEWBE_1143 rsgA; ribosome small subunit-dependent GTPase A K06949 rsgA; ribosome biogenesis GTPase / thiamine phosphate phosphatase [EC:3.6.1.- 3.1.3.100]
C SHEWBE_3650 der; GTPase involved in ribosome synthesis and maintenance K03977 engA; GTPase
C SHEWBE_4226 obgE; GTPase involved in cell partioning and DNA repair K03979 obgE; GTPase [EC:3.6.5.-]
C SHEWBE_3035 rbgA; Ribosome biogenesis GTPase A K14540 rbgA; ribosome biogenesis GTPase A
C SHEWBE_1154 hflX; putative GTPase K03665 hflX; GTPase
B Other maturation factors
C SHEWBE_0630 tsaC; Threonylcarbamoyl-AMP synthase K07566 tsaC; L-threonylcarbamoyladenylate synthase [EC:2.7.7.87]
C SHEWBE_0218 spoT; bifunctional (p)ppGpp synthetase II and guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase K01139 spoT; GTP diphosphokinase / guanosine-3',5'-bis(diphosphate) 3'-diphosphatase [EC:2.7.6.5 3.1.7.2]
C SHEWBE_3930 rbfA; 30s ribosome binding factor K02834 rbfA; ribosome-binding factor A
C SHEWBE_3933 yhbC; conserved hypothetical protein K09748 rimP; ribosome maturation factor RimP
C SHEWBE_2165 conserved protein of unknown function K14761 rlbA; ribosome-associated protein
C SHEWBE_4033 ybeB; hypothetical protein K09710 ybeB; ribosome-associated protein
C SHEWBE_4021 ybeY; putative metal-dependent hydrolase K07042 ybeY; probable rRNA maturation factor
C SHEWBE_3940 yhbY; putative RNA-binding protein K07574 yhbY; RNA-binding protein
C SHEWBE_2189 conserved protein of unknown function K14762 yibL; ribosome-associated protein
C SHEWBE_0966 conserved protein of unknown function K09889 yjgA; ribosome-associated protein
C SHEWBE_1073 yhbH; ribosome-associated, sigma 54 modulation protein K05808 hpf; ribosome hibernation promoting factor
C SHEWBE_3787 Ribosomal subunit interface protein K05809 raiA; ribosome-associated inhibitor A
C SHEWBE_1658 yfiA; cold shock protein associated with 30S ribosomal subunit K05809 raiA; ribosome-associated inhibitor A
C SHEWBE_4015 putative GTP-binding protein K06942 ychF; ribosome-binding ATPase
C SHEWBE_3026 yceD; conserved hypothetical protein K07040 yceD; DUF177 domain-containing protein
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ARelated small nucleolar RNAs
B Box C/D snoRNAs
C SnoRNAs involved in processing reactions
C SnoRNAs act as guides for 2'-O-ribose methylation
B Box H/ACA snoRNAs
C SnoRNAs involved in processing reactions
C SnoRNAs act as guides for pseudouridynation
B Other snoRNA
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#[ BRITE | KEGG2 | KEGG ]
#Last updated: August 9, 2024