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Conserved domains on  [gi|50539800|ref|NP_001002370|]
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18S rRNA aminocarboxypropyltransferase [Danio rerio]

Protein Classification

ribosome biogenesis TSR3 family protein( domain architecture ID 10513450)

ribosome biogenesis TSR3 family protein such as human 18S rRNA aminocarboxypropyltransferase, also called 20S S rRNA accumulation protein 3 homolog, an aminocarboxypropyltransferase that catalyzes the aminocarboxypropyl transfer on pseudouridine at position 1248 (Psi1248) in 18S rRNA

Gene Ontology:  GO:1904047|GO:0042254
PubMed:  27084949|25566315

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribo_biogen_C pfam04034
Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some ...
 95-221 1.22e-84

Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some putative ribosome biogenesis proteins in archaea. It has also been identified in the eukaryotic protein Tsr3, which is involved in ribosomal RNA biogenesis.


:

Pssm-ID: 461139  Cd Length: 127  Bit Score: 249.65  E-value: 1.22e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800    95 LILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTPFSKMIGSHPRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIV 174
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 50539800   175 GFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLAVEKEFL 221
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 58-91 4.85e-12

Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in endoribonuclease RNase L inhibitor. Found at the N-terminal end of RNase L inhibitor proteins, adjacent to the 4Fe-4S binding domain, fer4, pfam00037. Also often found adjacent to the DUF367 domain pfam04034 in uncharacterized proteins. The RNase L system plays a major role in the anti-viral and anti-proliferative activities of interferons, and could possibly play a more general role in the regulation of RNA stability in mammalian cells. Inhibitory activity requires concentration-dependent association of RLI with RNase L.


:

Pssm-ID: 427689 [Multi-domain]  Cd Length: 35  Bit Score: 59.45  E-value: 4.85e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 50539800    58 PLAMWDLGHCDPKRCTGRKLARKGLVRCLRLNQR 91
Cdd:pfam04068   2 RLAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 35
 
Name Accession Description Interval E-value
Ribo_biogen_C pfam04034
Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some ...
 95-221 1.22e-84

Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some putative ribosome biogenesis proteins in archaea. It has also been identified in the eukaryotic protein Tsr3, which is involved in ribosomal RNA biogenesis.


Pssm-ID: 461139  Cd Length: 127  Bit Score: 249.65  E-value: 1.22e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800    95 LILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTPFSKMIGSHPRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIV 174
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 50539800   175 GFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLAVEKEFL 221
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 58-222 1.67e-75

Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441645  Cd Length: 170  Bit Score: 228.18  E-value: 1.67e-75
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800  58 PLAMWDLGHCDPKRCTGRKLARKGLVRCLR-LNQ-RFNGLILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTPFSK 135
Cdd:COG2042   2 KLYVYYLGQDDPKKCTARKLERFGLAKLVRsIRKiPRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFKR 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800 136 MIGSHpRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIVGFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLA 215
Cdd:COG2042  82 KRGNH-RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIVE 160


                ....*..
gi 50539800 216 VEKEFLS 222
Cdd:COG2042 161 IQNEYLD 167
PRK02287 PRK02287
DUF367 family protein;
63-221 1.69e-73

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 223.22  E-value: 1.69e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800   63 DLGHCDPKRCTGRKLARKGLVRCLRLNQRF--NGLILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTpFSKMIGSH 140
Cdd:PRK02287   8 HANQDDPKKCTARKLVRFGLARLVRSIRKIprGSIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGH 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800  141 PRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIVGFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLAVEKEF 220
Cdd:PRK02287  87 HRRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEY 166


                 .
gi 50539800  221 L 221
Cdd:PRK02287 167 L 167
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 58-91 4.85e-12

Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in endoribonuclease RNase L inhibitor. Found at the N-terminal end of RNase L inhibitor proteins, adjacent to the 4Fe-4S binding domain, fer4, pfam00037. Also often found adjacent to the DUF367 domain pfam04034 in uncharacterized proteins. The RNase L system plays a major role in the anti-viral and anti-proliferative activities of interferons, and could possibly play a more general role in the regulation of RNA stability in mammalian cells. Inhibitory activity requires concentration-dependent association of RLI with RNase L.


Pssm-ID: 427689 [Multi-domain]  Cd Length: 35  Bit Score: 59.45  E-value: 4.85e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 50539800    58 PLAMWDLGHCDPKRCTGRKLARKGLVRCLRLNQR 91
Cdd:pfam04068   2 RLAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 35
 
Name Accession Description Interval E-value
Ribo_biogen_C pfam04034
Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some ...
 95-221 1.22e-84

Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some putative ribosome biogenesis proteins in archaea. It has also been identified in the eukaryotic protein Tsr3, which is involved in ribosomal RNA biogenesis.


Pssm-ID: 461139  Cd Length: 127  Bit Score: 249.65  E-value: 1.22e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800    95 LILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTPFSKMIGSHPRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIV 174
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 50539800   175 GFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLAVEKEFL 221
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 58-222 1.67e-75

Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441645  Cd Length: 170  Bit Score: 228.18  E-value: 1.67e-75
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800  58 PLAMWDLGHCDPKRCTGRKLARKGLVRCLR-LNQ-RFNGLILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTPFSK 135
Cdd:COG2042   2 KLYVYYLGQDDPKKCTARKLERFGLAKLVRsIRKiPRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFKR 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800 136 MIGSHpRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIVGFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLA 215
Cdd:COG2042  82 KRGNH-RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIVE 160


                ....*..
gi 50539800 216 VEKEFLS 222
Cdd:COG2042 161 IQNEYLD 167
PRK02287 PRK02287
DUF367 family protein;
63-221 1.69e-73

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 223.22  E-value: 1.69e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800   63 DLGHCDPKRCTGRKLARKGLVRCLRLNQRF--NGLILSPMGTKYVTPADREIVAHGGLAVIDCSWARLEDTpFSKMIGSH 140
Cdd:PRK02287   8 HANQDDPKKCTARKLVRFGLARLVRSIRKIprGSIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGH 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 50539800  141 PRLLPYLVAANPVNYGKPCKLSCVEAYAATFCIVGFRDLAVLLLRKFKWGLGFLELNKTLLERYASSQSEEELLAVEKEF 220
Cdd:PRK02287  87 HRRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEY 166


                 .
gi 50539800  221 L 221
Cdd:PRK02287 167 L 167
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 58-91 4.85e-12

Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in endoribonuclease RNase L inhibitor. Found at the N-terminal end of RNase L inhibitor proteins, adjacent to the 4Fe-4S binding domain, fer4, pfam00037. Also often found adjacent to the DUF367 domain pfam04034 in uncharacterized proteins. The RNase L system plays a major role in the anti-viral and anti-proliferative activities of interferons, and could possibly play a more general role in the regulation of RNA stability in mammalian cells. Inhibitory activity requires concentration-dependent association of RLI with RNase L.


Pssm-ID: 427689 [Multi-domain]  Cd Length: 35  Bit Score: 59.45  E-value: 4.85e-12
                          10        20        30
                  ....*....|....*....|....*....|....
gi 50539800    58 PLAMWDLGHCDPKRCTGRKLARKGLVRCLRLNQR 91
Cdd:pfam04068   2 RLAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 35
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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