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Conserved domains on  [gi|19113607|ref|NP_596815|]
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mitochondrial 54S ribosomal protein mL57 [Schizosaccharomyces pombe]

Protein Classification

ribonuclease III domain-containing protein( domain architecture ID 2350)

ribonuclease III domain-containing protein similar to Mycoplasmoides pneumoniae ribonuclease 3 that digests double-stranded RNA

CATH:  1.10.1520.10
Gene Ontology:  GO:0004525|GO:0006396
PubMed:  11809414|24124076|17194582
SCOP:  4002876

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RIBOc super family cl00258
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 68-197 4.19e-25

RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.


The actual alignment was detected with superfamily member pfam14622:

Pssm-ID: 469693  Cd Length: 127  Bit Score: 94.93  E-value: 4.19e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113607    68 KSLREQIVTHKSYKHGLKRYNEPFVSVGNAVIDVCLLNHYLESGNFSTIPSYKDLVNLRSPARLAEVAKKWNPEtatQCI 147
Cdd:pfam14622   1 EELLLQALTHKSYANGRKPYNERLEFLGDAVLELSVSEYLFKKPDLDEGGLTKLRASIVSEESLAEIAREIGLG---KYL 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 19113607   148 LPLKGPNSPSSSSFEKIYSSIVSGLVAVVYFQKGGVEAMNFCKKSIISDL 197
Cdd:pfam14622  78 RLGKGEEETGGSGRESILADALEALIGAIYLDGGFEVAKEFILKKILPDL 127
 
Name Accession Description Interval E-value
Ribonucleas_3_3 pfam14622
Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA ...
 68-197 4.19e-25

Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA processing. They probably also cleave a stem-loop structure at the 3' end of U2 snRNA to ensure formation of the correct U2 3' end; they are involved in polyadenylation-independent transcription termination. Some members may be mitochondrial ribosomal protein subunit L15, others may be 60S ribosomal protein L3.


Pssm-ID: 434075  Cd Length: 127  Bit Score: 94.93  E-value: 4.19e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113607    68 KSLREQIVTHKSYKHGLKRYNEPFVSVGNAVIDVCLLNHYLESGNFSTIPSYKDLVNLRSPARLAEVAKKWNPEtatQCI 147
Cdd:pfam14622   1 EELLLQALTHKSYANGRKPYNERLEFLGDAVLELSVSEYLFKKPDLDEGGLTKLRASIVSEESLAEIAREIGLG---KYL 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 19113607   148 LPLKGPNSPSSSSFEKIYSSIVSGLVAVVYFQKGGVEAMNFCKKSIISDL 197
Cdd:pfam14622  78 RLGKGEEETGGSGRESILADALEALIGAIYLDGGFEVAKEFILKKILPDL 127
RIBOc cd00593
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 69-200 9.97e-04

RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.


Pssm-ID: 238333  Cd Length: 133  Bit Score: 37.98  E-value: 9.97e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113607  69 SLREQIVTHKSYKHGLKRYN----EpFvsVGNAVID----VCLLNHY--LESGNFSTIPSykDLVNLRSparLAEVAKKW 138
Cdd:cd00593   1 SLLLEALTHPSYANEHGRFNnerlE-F--LGDAVLElvvtEYLFKKFpdLSEGDLTRLRS--ALVSNET---LARLAREL 72

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19113607 139 NPEtatQCILPLKGPNSPSSSSFEKIYSSIVSGLVAVVYFQKGGVEAMNFCKKSIISDLTKD 200
Cdd:cd00593  73 GLG---KYLRLGKGEEKSGGRLRPKILADVFEALIGAIYLDGGFEAARKFLLRLLGPLIEEI 131
 
Name Accession Description Interval E-value
Ribonucleas_3_3 pfam14622
Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA ...
 68-197 4.19e-25

Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA processing. They probably also cleave a stem-loop structure at the 3' end of U2 snRNA to ensure formation of the correct U2 3' end; they are involved in polyadenylation-independent transcription termination. Some members may be mitochondrial ribosomal protein subunit L15, others may be 60S ribosomal protein L3.


Pssm-ID: 434075  Cd Length: 127  Bit Score: 94.93  E-value: 4.19e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113607    68 KSLREQIVTHKSYKHGLKRYNEPFVSVGNAVIDVCLLNHYLESGNFSTIPSYKDLVNLRSPARLAEVAKKWNPEtatQCI 147
Cdd:pfam14622   1 EELLLQALTHKSYANGRKPYNERLEFLGDAVLELSVSEYLFKKPDLDEGGLTKLRASIVSEESLAEIAREIGLG---KYL 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 19113607   148 LPLKGPNSPSSSSFEKIYSSIVSGLVAVVYFQKGGVEAMNFCKKSIISDL 197
Cdd:pfam14622  78 RLGKGEEETGGSGRESILADALEALIGAIYLDGGFEVAKEFILKKILPDL 127
RIBOc cd00593
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 69-200 9.97e-04

RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.


Pssm-ID: 238333  Cd Length: 133  Bit Score: 37.98  E-value: 9.97e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19113607  69 SLREQIVTHKSYKHGLKRYN----EpFvsVGNAVID----VCLLNHY--LESGNFSTIPSykDLVNLRSparLAEVAKKW 138
Cdd:cd00593   1 SLLLEALTHPSYANEHGRFNnerlE-F--LGDAVLElvvtEYLFKKFpdLSEGDLTRLRS--ALVSNET---LARLAREL 72

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19113607 139 NPEtatQCILPLKGPNSPSSSSFEKIYSSIVSGLVAVVYFQKGGVEAMNFCKKSIISDLTKD 200
Cdd:cd00593  73 GLG---KYLRLGKGEEKSGGRLRPKILADVFEALIGAIYLDGGFEAARKFLLRLLGPLIEEI 131
 
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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