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Conserved domains on  [gi|170087962|ref|XP_001875204|]
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uncharacterized protein LACBIDRAFT_244871, partial [Laccaria bicolor S238N-H82]

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 ...
 39-165 1.67e-82

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: 240.41  E-value: 1.67e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   39 IVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVPFNKIASPHERLLPYLLATNPTNYGKPWRLNCVEALAASFYIT 118
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 170087962  119 GFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVTVAQESIM 165
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 1-33 3.81e-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: 58.29  E-value: 3.81e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 170087962    1 VPVAMWDFDHCDPRRCSGKKLARQGLIKDLKVG 33
Cdd:pfam04068   1 MRLAIVDFDQCDPKKCTGRKCIRFCPVREVRTG 33
 
Name Accession Description Interval E-value
Ribo_biogen_C pfam04034
Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some ...
 39-165 1.67e-82

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: 240.41  E-value: 1.67e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   39 IVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVPFNKIASPHERLLPYLLATNPTNYGKPWRLNCVEALAASFYIT 118
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 170087962  119 GFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVTVAQESIM 165
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 1-167 1.17e-60

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


Pssm-ID: 441645  Cd Length: 170  Bit Score: 186.58  E-value: 1.17e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   1 VPVAMWDFDHCDPRRCSGKKLARQGLIKDLKV--GTRFRGIVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVPFN 78
Cdd:COG2042    1 MKLYVYYLGQDDPKKCTARKLERFGLAKLVRSirKIPRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962  79 KIASPHeRLLPYLLATNPTNYGKPWRLNCVEALAASFYITGFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVT 158
Cdd:COG2042   81 RKRGNH-RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIV 159


                 ....*....
gi 170087962 159 VAQESIMDE 167
Cdd:COG2042  160 EIQNEYLDD 168
PRK02287 PRK02287
DUF367 family protein;
7-169 5.56e-59

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 182.39  E-value: 5.56e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   7 DFDHCDPRRCSGKKLARQGLIKDL-KVGTRFRG-IVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVpFNKIASPH 84
Cdd:PRK02287   8 HANQDDPKKCTARKLVRFGLARLVrSIRKIPRGsIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGH 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962  85 ERLLPYLLATNPTNYGKPWRLNCVEALAASFYITGFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVTVAQESI 164
Cdd:PRK02287  87 HRRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEY 166


                 ....*
gi 170087962 165 MDELE 169
Cdd:PRK02287 167 LGKIL 171
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 1-33 3.81e-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: 58.29  E-value: 3.81e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 170087962    1 VPVAMWDFDHCDPRRCSGKKLARQGLIKDLKVG 33
Cdd:pfam04068   1 MRLAIVDFDQCDPKKCTGRKCIRFCPVREVRTG 33
 
Name Accession Description Interval E-value
Ribo_biogen_C pfam04034
Ribosome biogenesis protein, C-terminal; This family represents the C-terminal domain of some ...
 39-165 1.67e-82

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: 240.41  E-value: 1.67e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   39 IVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVPFNKIASPHERLLPYLLATNPTNYGKPWRLNCVEALAASFYIT 118
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 170087962  119 GFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVTVAQESIM 165
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 1-167 1.17e-60

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


Pssm-ID: 441645  Cd Length: 170  Bit Score: 186.58  E-value: 1.17e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   1 VPVAMWDFDHCDPRRCSGKKLARQGLIKDLKV--GTRFRGIVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVPFN 78
Cdd:COG2042    1 MKLYVYYLGQDDPKKCTARKLERFGLAKLVRSirKIPRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962  79 KIASPHeRLLPYLLATNPTNYGKPWRLNCVEALAASFYITGFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVT 158
Cdd:COG2042   81 RKRGNH-RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIV 159


                 ....*....
gi 170087962 159 VAQESIMDE 167
Cdd:COG2042  160 EIQNEYLDD 168
PRK02287 PRK02287
DUF367 family protein;
7-169 5.56e-59

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 182.39  E-value: 5.56e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962   7 DFDHCDPRRCSGKKLARQGLIKDL-KVGTRFRG-IVVSPKGKQVISPSDREIILQAGLAVVECSWARLDDVpFNKIASPH 84
Cdd:PRK02287   8 HANQDDPKKCTARKLVRFGLARLVrSIRKIPRGsIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGH 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 170087962  85 ERLLPYLLATNPTNYGKPWRLNCVEALAASFYITGFDSYAEKLLSGFGWGGSFWKVNKCFLEKYRSCGTAEEVTVAQESI 164
Cdd:PRK02287  87 HRRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEY 166


                 ....*
gi 170087962 165 MDELE 169
Cdd:PRK02287 167 LGKIL 171
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 1-33 3.81e-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: 58.29  E-value: 3.81e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 170087962    1 VPVAMWDFDHCDPRRCSGKKLARQGLIKDLKVG 33
Cdd:pfam04068   1 MRLAIVDFDQCDPKKCTGRKCIRFCPVREVRTG 33
 
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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