NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|16878252|gb|AAH17325|]
View 

Chromosome 16 open reading frame 42 [Homo sapiens]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 96-222 9.62e-86

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: 253.12  E-value: 9.62e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252    96 LVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETPFGKMRGSHLRLLPYLVAANPVNYGRPYRLSCVEAFAATFCIV 175
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 16878252   176 GFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 60-92 2.98e-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: 60.22  E-value: 2.98e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 16878252    60 LAMWELGHCDPRRCTGRKLARLGLVRCLRLGHR 92
Cdd:pfam04068   3 LAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 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 ...
 96-222 9.62e-86

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: 253.12  E-value: 9.62e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252    96 LVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETPFGKMRGSHLRLLPYLVAANPVNYGRPYRLSCVEAFAATFCIV 175
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 16878252   176 GFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 65-224 9.29e-72

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


Pssm-ID: 441645  Cd Length: 170  Bit Score: 219.32  E-value: 9.29e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252  65 LGHCDPRRCTGRKLARLGLVRCLRLGHR--FGGLVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETPFGKMRGSHl 142
Cdd:COG2042   8 LGQDDPKKCTARKLERFGLAKLVRSIRKipRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFKRKRGNH- 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252 143 RLLPYLVAANPVNYGRPYRLSCVEAFAATFCIVGFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:COG2042  87 RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIVEIQNEYL 166


                ..
gi 16878252 223 AN 224
Cdd:COG2042 167 DD 168
PRK02287 PRK02287
DUF367 family protein;
65-223 1.91e-71

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 218.59  E-value: 1.91e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252   65 LGHCDPRRCTGRKLARLGLVRCLRLGHRF--GGLVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETpFGKMRGSHL 142
Cdd:PRK02287   9 ANQDDPKKCTARKLVRFGLARLVRSIRKIprGSIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGHH 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252  143 RLLPYLVAANPVNYGRPYRLSCVEAFAATFCIVGFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:PRK02287  88 RRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEYL 167


                 .
gi 16878252  223 A 223
Cdd:PRK02287 168 G 168
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 60-92 2.98e-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: 60.22  E-value: 2.98e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 16878252    60 LAMWELGHCDPRRCTGRKLARLGLVRCLRLGHR 92
Cdd:pfam04068   3 LAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 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 ...
 96-222 9.62e-86

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: 253.12  E-value: 9.62e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252    96 LVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETPFGKMRGSHLRLLPYLVAANPVNYGRPYRLSCVEAFAATFCIV 175
Cdd:pfam04034   1 IVLSPFAEKVLSPADREIVEKYGIAVVDCSWARLDEVPFSKIRGPNERLLPYLVAANPVNYGKPCKLSCVEALAAALYIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 16878252   176 GFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:pfam04034  81 GFKEEAEELLSKFKWGHTFLELNKELLERYAACKDSEEVVEVQNEYL 127
Tsr3 COG2042
Ribosome biogenesis protein Tsr3 (rRNA maturation) [Translation, ribosomal structure and ...
 65-224 9.29e-72

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


Pssm-ID: 441645  Cd Length: 170  Bit Score: 219.32  E-value: 9.29e-72
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252  65 LGHCDPRRCTGRKLARLGLVRCLRLGHR--FGGLVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETPFGKMRGSHl 142
Cdd:COG2042   8 LGQDDPKKCTARKLERFGLAKLVRSIRKipRGGIVLDPFAEKALSPADRDIVEKRGIVALDCSWEKAEEVFFKRKRGNH- 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252 143 RLLPYLVAANPVNYGRPYRLSCVEAFAATFCIVGFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:COG2042  87 RRLPFLLAANPVNYGKPFKLSSVEALAAALYILGEKEQAEEILSKFKWGHTFLELNKELLEDYAKAKDSEEIVEIQNEYL 166


                ..
gi 16878252 223 AN 224
Cdd:COG2042 167 DD 168
PRK02287 PRK02287
DUF367 family protein;
65-223 1.91e-71

DUF367 family protein;


Pssm-ID: 235024 [Multi-domain]  Cd Length: 171  Bit Score: 218.59  E-value: 1.91e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252   65 LGHCDPRRCTGRKLARLGLVRCLRLGHRF--GGLVLSPVGKQYASPADRQLVAQSGVAVIDCSWARLDETpFGKMRGSHL 142
Cdd:PRK02287   9 ANQDDPKKCTARKLVRFGLARLVRSIRKIprGSIVLNPFAEKALSPADRDIVEKRGIVALDCSWNEAERV-FFKLLRGHH 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16878252  143 RLLPYLVAANPVNYGRPYRLSCVEAFAATFCIVGFPDLAVILLRKFKWGKGFLDLNRQLLDKYAACGSPEEVLQAEQEFL 222
Cdd:PRK02287  88 RRLPFLVAANPVNYGKPFKLSSVEALAAALYILGFKEEAEKILSKFKWGHTFLELNKEPLEAYARAKDSEEIVEIQKEYL 167


                 .
gi 16878252  223 A 223
Cdd:PRK02287 168 G 168
RLI pfam04068
Possible Fer4-like domain in RNase L inhibitor, RLI; Possible metal-binding domain in ...
 60-92 2.98e-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: 60.22  E-value: 2.98e-12
                          10        20        30
                  ....*....|....*....|....*....|...
gi 16878252    60 LAMWELGHCDPRRCTGRKLARLGLVRCLRLGHR 92
Cdd:pfam04068   3 LAIVDFDQCDPKKCTGRKCIRFCPVREVRTGKK 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH