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Conserved domains on  [gi|17137682|ref|NP_477436|]
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drosha [Drosophila melanogaster]

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
Rnc COG0571
dsRNA-specific ribonuclease [Transcription];
973-1196 1.90e-58

dsRNA-specific ribonuclease [Transcription];


:

Pssm-ID: 440336 [Multi-domain]  Cd Length: 229  Bit Score: 201.10  E-value: 1.90e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  973 KELTKFEDSIGIKFKHIRLLARAFTDRSIGFTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNN 1052
Cdd:COG0571    2 EDLEELEERLGYRFKDPELLEQALTHRSYANEHGGLENNERLEFLGDAVLGLVVAEYLYRRFPDAPEGELSKLRAALVSE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1053 RTQAVVCDDLGMPKYAVYAnpKADLKTKDR------ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIMNQDWNDP 1126
Cdd:COG0571   82 ETLAEIARELGLGDYLRLG--KGEEKSGGRrrpsilADAFEALIGAIYLDGGLEAARKFVLRLFEPRLEEIAPGGAGKDY 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1127 KSKLQQccLTLRtmDGGEPdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALE 1196
Cdd:COG0571  160 KTALQE--WLQA--RGLPL--PEYEVVEEEGPDHAKTFTVEVLVGGKVLGEGTGRSKKEAEQAAAKAALE 223
RIBOc smart00535
Ribonuclease III family;
826-942 4.63e-31

Ribonuclease III family;


:

Pssm-ID: 197778  Cd Length: 129  Bit Score: 118.86  E-value: 4.63e-31
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682     826 VSNITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRH 905
Cdd:smart00535   13 SNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIRLGRGEAISGGRDKPK 92

                            90       100       110
                    ....*....|....*....|....*....|....*..
gi 17137682     906 AMANCFEALMGALLLDGGIKVADEVFTDALFRQDEKL 942
Cdd:smart00535   93 ILADVFEALIGAIYLDSGLEAAREFIRDLLGPRLDEL 129
 
Name Accession Description Interval E-value
Rnc COG0571
dsRNA-specific ribonuclease [Transcription];
973-1196 1.90e-58

dsRNA-specific ribonuclease [Transcription];


Pssm-ID: 440336 [Multi-domain]  Cd Length: 229  Bit Score: 201.10  E-value: 1.90e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  973 KELTKFEDSIGIKFKHIRLLARAFTDRSIGFTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNN 1052
Cdd:COG0571    2 EDLEELEERLGYRFKDPELLEQALTHRSYANEHGGLENNERLEFLGDAVLGLVVAEYLYRRFPDAPEGELSKLRAALVSE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1053 RTQAVVCDDLGMPKYAVYAnpKADLKTKDR------ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIMNQDWNDP 1126
Cdd:COG0571   82 ETLAEIARELGLGDYLRLG--KGEEKSGGRrrpsilADAFEALIGAIYLDGGLEAARKFVLRLFEPRLEEIAPGGAGKDY 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1127 KSKLQQccLTLRtmDGGEPdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALE 1196
Cdd:COG0571  160 KTALQE--WLQA--RGLPL--PEYEVVEEEGPDHAKTFTVEVLVGGKVLGEGTGRSKKEAEQAAAKAALE 223
RNaseIII TIGR02191
ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. ...
 978-1197 4.90e-46

ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family. [Transcription, RNA processing]


Pssm-ID: 274024 [Multi-domain]  Cd Length: 220  Bit Score: 165.07  E-value: 4.90e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    978 FEDSIGIKFKHIRLLARAFTDRSIG-FTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQA 1056
Cdd:TIGR02191    1 LEKRLGYKFKNPELLEQALTHRSYAnEHHKDVKNNERLEFLGDAVLGLVVAEYLFKNFPDASEGELSRLRAALVSEESLA 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682   1057 VVCDDLGMPKYAVYanPKADLKTKDR------ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIMNQDWNDPKSKL 1130
Cdd:TIGR02191   81 EVARELGLGDFLLL--GKGEEKSGGRrrdsilADAFEALIGAIYLDSGLEAARKFILKLLIPRIDAIIKEETLKDYKTAL 158

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17137682   1131 QQccLTLRTmdGGEPdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALEN 1197
Cdd:TIGR02191  159 QE--WAQAR--GKPL--PEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKKEAEQNAAKAALEK 219
DSRM_RNAse_III_meta_like cd19877
double-stranded RNA binding motif of metazoan ribonuclease III (RNase III) and similar ...
 1124-1198 1.22e-43

double-stranded RNA binding motif of metazoan ribonuclease III (RNase III) and similar proteins; RNase III (EC 3.1.26.3; also known as Drosha, or ribonuclease 3) is a double-stranded RNA (dsRNA)-specific endoribonuclease that is involved in the initial step of microRNA (miRNA) biogenesis. It is a component of the microprocessor complex that is required to process primary miRNA transcripts (pri-miRNAs) to release precursor miRNA (pre-miRNA) in the nucleus. Within the microprocessor complex, RNase III cleaves the 3' and 5' strands of a stem-loop in pri-miRNAs (processing center 11 bp from the dsRNA-ssRNA junction) to release hairpin-shaped pre-miRNAs that are subsequently cut by the cytoplasmic DICER to generate mature miRNAs. It is also involved in pre-rRNA processing. Metazoan RNase III is a larger protein than bacterial RNase III. It contains two RNase III domains in the C-terminal half of the protein followed by a double-stranded RNA binding motif (DSRM). DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380706  Cd Length: 75  Bit Score: 152.81  E-value: 1.22e-43
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17137682 1124 NDPKSKLQQCCLTLRTMDGGEPDIPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALENS 1198
Cdd:cd19877    1 NDPKSQLQQCCLTLRTEGKKEPDIPEYKVLQKSGPTNTRVYTVAVYFRGERIATGTGSSIQQAEMNAAEKALEKL 75
RIBOc smart00535
Ribonuclease III family;
990-1117 4.53e-41

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 147.37  E-value: 4.53e-41
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682     990 RLLARAFTDRSIGFTHltlGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAV 1069
Cdd:smart00535    1 SLLLRALTHASYSNEH---EHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIR 77

                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|..
gi 17137682    1070 YANPKAD----LKTKDRADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLF 1117
Cdd:smart00535   78 LGRGEAIsggrDKPKILADVFEALIGAIYLDSGLEAAREFIRDLLGPRLDEL 129
RIBOc smart00535
Ribonuclease III family;
826-942 4.63e-31

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 118.86  E-value: 4.63e-31
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682     826 VSNITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRH 905
Cdd:smart00535   13 SNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIRLGRGEAISGGRDKPK 92

                            90       100       110
                    ....*....|....*....|....*....|....*..
gi 17137682     906 AMANCFEALMGALLLDGGIKVADEVFTDALFRQDEKL 942
Cdd:smart00535   93 ILADVFEALIGAIYLDSGLEAAREFIRDLLGPRLDEL 129
RIBOc cd00593
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 823-936 6.66e-30

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: 115.79  E-value: 6.66e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  823 HETVSN---ITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCH 899
Cdd:cd00593    9 HPSYANehgRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELGLGKYLRLGKGEEKSG 88

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 17137682  900 ELELRHAMANCFEALMGALLLDGGIKVADEVFTDALF 936
Cdd:cd00593   89 GRLRPKILADVFEALIGAIYLDGGFEAARKFLLRLLG 125
Ribonuclease_3 pfam00636
Ribonuclease III domain;
1012-1098 2.92e-24

Ribonuclease III domain;


Pssm-ID: 459883  Cd Length: 101  Bit Score: 98.50  E-value: 2.92e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682   1012 QRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAVYANP--------------KADL 1077
Cdd:pfam00636    1 ERLEFLGDAVLELYVREYLFEKFPDLREGDLHRLRSALVSNEALAKLARKLGLEKFLTEEELdirrrnnalgkgpkRADG 80

                           90       100
                   ....*....|....*....|.
gi 17137682   1078 KTKDRADLLEAFLGALYVDKG 1098
Cdd:pfam00636   81 KEKVLADAFEALIGALYLDGG 101
RNaseIII TIGR02191
ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. ...
 746-957 4.14e-24

ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family. [Transcription, RNA processing]


Pssm-ID: 274024 [Multi-domain]  Cd Length: 220  Bit Score: 101.90  E-value: 4.14e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    746 LEESIGYRFKNRYLLQLALTHPSYKenygtnpdharnsltncgirqpeygdrkihymntrkrgintlvsimsrfgkeHET 825
Cdd:TIGR02191    1 LEKRLGYKFKNPELLEQALTHRSYA----------------------------------------------------NEH 28

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    826 VSNITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRH 905
Cdd:TIGR02191   29 HKDVKNNERLEFLGDAVLGLVVAEYLFKNFPDASEGELSRLRAALVSEESLAEVARELGLGDFLLLGKGEEKSGGRRRDS 108

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 17137682    906 AMANCFEALMGALLLDGGIKVADEVFTD---ALFRQDEKLLSI--WKNLpehpLQEQ 957
Cdd:TIGR02191  109 ILADAFEALIGAIYLDSGLEAARKFILKlliPRIDAIIKEETLkdYKTA----LQEW 161
Ribonucleas_3_3 pfam14622
Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA ...
 831-931 3.28e-17

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: 79.14  E-value: 3.28e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    831 HNERLEFLGDAVVEfLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRHAMANC 910
Cdd:pfam14622   20 YNERLEFLGDAVLE-LSVSEYLFKKPDLDEGGLTKLRASIVSEESLAEIAREIGLGKYLRLGKGEEETGGSGRESILADA 98

                           90       100
                   ....*....|....*....|.
gi 17137682    911 FEALMGALLLDGGIKVADEVF 931
Cdd:pfam14622   99 LEALIGAIYLDGGFEVAKEFI 119
 
Name Accession Description Interval E-value
Rnc COG0571
dsRNA-specific ribonuclease [Transcription];
973-1196 1.90e-58

dsRNA-specific ribonuclease [Transcription];


Pssm-ID: 440336 [Multi-domain]  Cd Length: 229  Bit Score: 201.10  E-value: 1.90e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  973 KELTKFEDSIGIKFKHIRLLARAFTDRSIGFTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNN 1052
Cdd:COG0571    2 EDLEELEERLGYRFKDPELLEQALTHRSYANEHGGLENNERLEFLGDAVLGLVVAEYLYRRFPDAPEGELSKLRAALVSE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1053 RTQAVVCDDLGMPKYAVYAnpKADLKTKDR------ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIMNQDWNDP 1126
Cdd:COG0571   82 ETLAEIARELGLGDYLRLG--KGEEKSGGRrrpsilADAFEALIGAIYLDGGLEAARKFVLRLFEPRLEEIAPGGAGKDY 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682 1127 KSKLQQccLTLRtmDGGEPdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALE 1196
Cdd:COG0571  160 KTALQE--WLQA--RGLPL--PEYEVVEEEGPDHAKTFTVEVLVGGKVLGEGTGRSKKEAEQAAAKAALE 223
RNaseIII TIGR02191
ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. ...
 978-1197 4.90e-46

ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family. [Transcription, RNA processing]


Pssm-ID: 274024 [Multi-domain]  Cd Length: 220  Bit Score: 165.07  E-value: 4.90e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    978 FEDSIGIKFKHIRLLARAFTDRSIG-FTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQA 1056
Cdd:TIGR02191    1 LEKRLGYKFKNPELLEQALTHRSYAnEHHKDVKNNERLEFLGDAVLGLVVAEYLFKNFPDASEGELSRLRAALVSEESLA 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682   1057 VVCDDLGMPKYAVYanPKADLKTKDR------ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIMNQDWNDPKSKL 1130
Cdd:TIGR02191   81 EVARELGLGDFLLL--GKGEEKSGGRrrdsilADAFEALIGAIYLDSGLEAARKFILKLLIPRIDAIIKEETLKDYKTAL 158

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17137682   1131 QQccLTLRTmdGGEPdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALEN 1197
Cdd:TIGR02191  159 QE--WAQAR--GKPL--PEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKKEAEQNAAKAALEK 219
DSRM_RNAse_III_meta_like cd19877
double-stranded RNA binding motif of metazoan ribonuclease III (RNase III) and similar ...
 1124-1198 1.22e-43

double-stranded RNA binding motif of metazoan ribonuclease III (RNase III) and similar proteins; RNase III (EC 3.1.26.3; also known as Drosha, or ribonuclease 3) is a double-stranded RNA (dsRNA)-specific endoribonuclease that is involved in the initial step of microRNA (miRNA) biogenesis. It is a component of the microprocessor complex that is required to process primary miRNA transcripts (pri-miRNAs) to release precursor miRNA (pre-miRNA) in the nucleus. Within the microprocessor complex, RNase III cleaves the 3' and 5' strands of a stem-loop in pri-miRNAs (processing center 11 bp from the dsRNA-ssRNA junction) to release hairpin-shaped pre-miRNAs that are subsequently cut by the cytoplasmic DICER to generate mature miRNAs. It is also involved in pre-rRNA processing. Metazoan RNase III is a larger protein than bacterial RNase III. It contains two RNase III domains in the C-terminal half of the protein followed by a double-stranded RNA binding motif (DSRM). DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380706  Cd Length: 75  Bit Score: 152.81  E-value: 1.22e-43
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17137682 1124 NDPKSKLQQCCLTLRTMDGGEPDIPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALENS 1198
Cdd:cd19877    1 NDPKSQLQQCCLTLRTEGKKEPDIPEYKVLQKSGPTNTRVYTVAVYFRGERIATGTGSSIQQAEMNAAEKALEKL 75
RIBOc smart00535
Ribonuclease III family;
990-1117 4.53e-41

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 147.37  E-value: 4.53e-41
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682     990 RLLARAFTDRSIGFTHltlGSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAV 1069
Cdd:smart00535    1 SLLLRALTHASYSNEH---EHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIR 77

                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|..
gi 17137682    1070 YANPKAD----LKTKDRADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLF 1117
Cdd:smart00535   78 LGRGEAIsggrDKPKILADVFEALIGAIYLDSGLEAAREFIRDLLGPRLDEL 129
RIBOc cd00593
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 990-1119 2.96e-40

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: 145.06  E-value: 2.96e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  990 RLLARAFTDRSIGFTHLTLgSNQRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAV 1069
Cdd:cd00593    1 SLLLEALTHPSYANEHGRF-NNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELGLGKYLR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 17137682 1070 YANP----KADLKTKDRADLLEAFLGALYVDKGLLYCEQFCHVCLFPRLQLFIM 1119
Cdd:cd00593   80 LGKGeeksGGRLRPKILADVFEALIGAIYLDGGFEAARKFLLRLLGPLIEEISL 133
RIBOc smart00535
Ribonuclease III family;
826-942 4.63e-31

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 118.86  E-value: 4.63e-31
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682     826 VSNITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRH 905
Cdd:smart00535   13 SNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIRLGRGEAISGGRDKPK 92

                            90       100       110
                    ....*....|....*....|....*....|....*..
gi 17137682     906 AMANCFEALMGALLLDGGIKVADEVFTDALFRQDEKL 942
Cdd:smart00535   93 ILADVFEALIGAIYLDSGLEAAREFIRDLLGPRLDEL 129
RIBOc cd00593
RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and ...
 823-936 6.66e-30

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: 115.79  E-value: 6.66e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682  823 HETVSN---ITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCH 899
Cdd:cd00593    9 HPSYANehgRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELGLGKYLRLGKGEEKSG 88

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 17137682  900 ELELRHAMANCFEALMGALLLDGGIKVADEVFTDALF 936
Cdd:cd00593   89 GRLRPKILADVFEALIGAIYLDGGFEAARKFLLRLLG 125
Ribonuclease_3 pfam00636
Ribonuclease III domain;
1012-1098 2.92e-24

Ribonuclease III domain;


Pssm-ID: 459883  Cd Length: 101  Bit Score: 98.50  E-value: 2.92e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682   1012 QRLEFLGDTVLQLICSEYLYRHFPEHHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAVYANP--------------KADL 1077
Cdd:pfam00636    1 ERLEFLGDAVLELYVREYLFEKFPDLREGDLHRLRSALVSNEALAKLARKLGLEKFLTEEELdirrrnnalgkgpkRADG 80

                           90       100
                   ....*....|....*....|.
gi 17137682   1078 KTKDRADLLEAFLGALYVDKG 1098
Cdd:pfam00636   81 KEKVLADAFEALIGALYLDGG 101
RNaseIII TIGR02191
ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. ...
 746-957 4.14e-24

ribonuclease III, bacterial; This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family. [Transcription, RNA processing]


Pssm-ID: 274024 [Multi-domain]  Cd Length: 220  Bit Score: 101.90  E-value: 4.14e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    746 LEESIGYRFKNRYLLQLALTHPSYKenygtnpdharnsltncgirqpeygdrkihymntrkrgintlvsimsrfgkeHET 825
Cdd:TIGR02191    1 LEKRLGYKFKNPELLEQALTHRSYA----------------------------------------------------NEH 28

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    826 VSNITHNERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRH 905
Cdd:TIGR02191   29 HKDVKNNERLEFLGDAVLGLVVAEYLFKNFPDASEGELSRLRAALVSEESLAEVARELGLGDFLLLGKGEEKSGGRRRDS 108

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 17137682    906 AMANCFEALMGALLLDGGIKVADEVFTD---ALFRQDEKLLSI--WKNLpehpLQEQ 957
Cdd:TIGR02191  109 ILADAFEALIGAIYLDSGLEAARKFILKlliPRIDAIIKEETLkdYKTA----LQEW 161
Ribonucleas_3_3 pfam14622
Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA ...
 991-1114 2.62e-22

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: 93.78  E-value: 2.62e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    991 LLARAFTDRSigFTHLTLGSNQRLEFLGDTVLQLICSEYLYRHFPEhHEGHLSLLRSSLVNNRTQAVVCDDLGMPKYAVY 1070
Cdd:pfam14622    3 LLLQALTHKS--YANGRKPYNERLEFLGDAVLELSVSEYLFKKPDL-DEGGLTKLRASIVSEESLAEIAREIGLGKYLRL 79

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*...
gi 17137682   1071 ANPKADLKTKDR----ADLLEAFLGALYVDKGLLYCEQFCHVCLFPRL 1114
Cdd:pfam14622   80 GKGEEETGGSGResilADALEALIGAIYLDGGFEVAKEFILKKILPDL 127
Ribonucleas_3_3 pfam14622
Ribonuclease-III-like; Members of this family are involved in rDNA transcription and rRNA ...
 831-931 3.28e-17

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: 79.14  E-value: 3.28e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    831 HNERLEFLGDAVVEfLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRHAMANC 910
Cdd:pfam14622   20 YNERLEFLGDAVLE-LSVSEYLFKKPDLDEGGLTKLRASIVSEESLAEIAREIGLGKYLRLGKGEEETGGSGRESILADA 98

                           90       100
                   ....*....|....*....|.
gi 17137682    911 FEALMGALLLDGGIKVADEVF 931
Cdd:pfam14622   99 LEALIGAIYLDGGFEVAKEFI 119
Ribonuclease_3 pfam00636
Ribonuclease III domain;
833-923 1.23e-15

Ribonuclease III domain;


Pssm-ID: 459883  Cd Length: 101  Bit Score: 73.85  E-value: 1.23e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17137682    833 ERLEFLGDAVVEFLSSIHLFFMFPELEEGGLATYRAAIVQNQHLALLAKKLQLEEFMLYAHGSDLCHELELRHA------ 906
Cdd:pfam00636    1 ERLEFLGDAVLELYVREYLFEKFPDLREGDLHRLRSALVSNEALAKLARKLGLEKFLTEEELDIRRRNNALGKGpkradg 80

                           90       100
                   ....*....|....*....|.
gi 17137682    907 ----MANCFEALMGALLLDGG 923
Cdd:pfam00636   81 kekvLADAFEALIGALYLDGG 101
DSRM_RNAse_III_family cd10845
double-stranded RNA binding motif of ribonuclease III (RNase III) and similar proteins; RNase ...
 1125-1197 3.62e-14

double-stranded RNA binding motif of ribonuclease III (RNase III) and similar proteins; RNase III (EC 3.1.26.3; also known as ribonuclease 3) digests double-stranded RNA formed within single-strand substrates, but not RNA-DNA hybrids. It is involved in the processing of rRNA precursors, viral transcripts, some mRNAs, and at least 1 tRNA (metY, a minor form of tRNA-init-Met). It cleaves the 30S primary rRNA transcript to yield the immediate precursors to the 16S and 23S rRNAs. The cleavage can occur in assembled 30S, 50S, and even 70S subunits and is influenced by the presence of ribosomal proteins. The RNase III family also includes the mitochondrion-specific ribosomal protein mL44 subfamily, which is composed of mitochondrial 54S ribosomal protein L3 (MRPL3) and mitochondrial 39S ribosomal protein L44 (MRPL44). Members of this family contain an RNase III domain and a C-terminal double-stranded RNA binding motif (DSRM). DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380682 [Multi-domain]  Cd Length: 69  Bit Score: 68.29  E-value: 3.62e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17137682 1125 DPKSKLQQCCLTLRTMDggepdiPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALEN 1197
Cdd:cd10845    2 DYKTALQEYLQKRGLPL------PEYELVEEEGPDHNKTFTVEVKVNGKVIGEGTGRSKKEAEQAAAKAALEK 68
DSRM smart00358
Double-stranded RNA binding motif;
1126-1196 5.23e-12

Double-stranded RNA binding motif;


Pssm-ID: 214634 [Multi-domain]  Cd Length: 67  Bit Score: 62.28  E-value: 5.23e-12
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 17137682    1126 PKSKLQQCCLTLRTmdggepdIPYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALE 1196
Cdd:smart00358    1 PKSLLQELAQKRKL-------PPEYELVKEEGPDHAPRFTVTVKVGGKRTGEGEGSSKKEAKQRAAEAALR 64
dsrm pfam00035
Double-stranded RNA binding motif; Sequences gathered for seed by HMM_iterative_training ...
 1126-1197 7.11e-12

Double-stranded RNA binding motif; Sequences gathered for seed by HMM_iterative_training Putative motif shared by proteins that bind to dsRNA. At least some DSRM proteins seem to bind to specific RNA targets. Exemplified by Staufen, which is involved in localization of at least five different mRNAs in the early Drosophila embryo. Also by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.


Pssm-ID: 425434 [Multi-domain]  Cd Length: 66  Bit Score: 61.86  E-value: 7.11e-12
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 17137682   1126 PKSKLQQCCLTLRtmdggePDIPYYKVVEaSGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALEN 1197
Cdd:pfam00035    1 PKSLLQEYAQKNG------KPPPYEYVSE-EGPPHSPKFTVTVKVDGKLYGSGTGSSKKEAEQLAAEKALEK 65
DSRM_MRPL3_like cd19873
double-stranded RNA binding motif of Saccharomyces cerevisiae mitochondrial 54S ribosomal ...
 1124-1195 4.68e-08

double-stranded RNA binding motif of Saccharomyces cerevisiae mitochondrial 54S ribosomal protein L3 (MRPL3) and similar proteins; MRPL3 (also called mitochondrial large ribosomal subunit protein mL44) is a component of the mitochondrial ribosome (mitoribosome), a dedicated translation machinery responsible for the synthesis of mitochondrial genome-encoded proteins, including at least some of the essential transmembrane subunits of the mitochondrial respiratory chain. MRPL3 contains a RNase III-like domain and a double-stranded RNA binding motif (DSRM). DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380702  Cd Length: 84  Bit Score: 51.45  E-value: 4.68e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17137682 1124 NDPKSKLQQCCltlrTMDGGEPdiPYYKVVEASG-PTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQAL 1195
Cdd:cd19873   12 ENPKRTLSALL----KREGLEP--PVSRLLKESGrASHTPTFVVGVYSGSQKLGEGAGSSIKMAEIRAARDAL 78
DSRM_RNT1p-like cd19876
double-stranded RNA binding motif of Saccharomyces cerevisiae ribonuclease 3 (RNT1p) and ...
 1147-1198 3.41e-05

double-stranded RNA binding motif of Saccharomyces cerevisiae ribonuclease 3 (RNT1p) and similar proteins; RNT1p (EC 3.1.26.3; also known as ribonuclease III (RNase III)) is a dsRNA-specific nuclease that cleaves eukaryotic pre-ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-external transcribed spacer (ETS) and in the 3'-ETS. RNT1p contains a double-stranded RNA binding motif (DSRM) at the C-terminus. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380705  Cd Length: 69  Bit Score: 43.10  E-value: 3.41e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 17137682 1147 IPYYKVVEASGPtNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALENS 1198
Cdd:cd19876   18 KPEYVVVKKEGG-NDPNYTVACRINGEVLGTGVGRSIKKAGQRAAMSALSNK 68
DSRM_EIF2AK2_rpt1 cd19903
first double-stranded RNA binding motif of eukaryotic translation initiation factor 2-alpha ...
 1150-1196 3.21e-03

first double-stranded RNA binding motif of eukaryotic translation initiation factor 2-alpha kinase 2 (EIF2AK2) and similar proteins; EIF2AK2 (EC 2.7.11.1/EC 2.7.10.2; also known as interferon-induced, double-stranded RNA-activated protein kinase, eIF-2A protein kinase 2, interferon-inducible RNA-dependent protein kinase, P1/eIF-2A protein kinase, protein kinase RNA-activated (PKR), protein kinase R, tyrosine-protein kinase EIF2AK2, or p68 kinase) acts as an IFN-induced dsRNA-dependent serine/threonine-protein kinase which plays a key role in the innate immune response to viral infection and is also involved in the regulation of signal transduction, apoptosis, cell proliferation and differentiation. EIF2AK2 proteins contain two to three double-stranded RNA binding motifs (DSRMs). This model describes the first motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380732  Cd Length: 68  Bit Score: 37.37  E-value: 3.21e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 17137682 1150 YKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQALE 1196
Cdd:cd19903   20 YVEVPTSGPSHDPRFTFQVVIDGKEYPEGEGKSKKEAKQAAAKLALE 66
DSRM_STAU_rpt1 cd19857
first double-stranded RNA binding motif of Drosophila melanogaster maternal effect protein ...
 1148-1195 4.68e-03

first double-stranded RNA binding motif of Drosophila melanogaster maternal effect protein Staufen and similar proteins; Staufen is a double-stranded RNA binding protein required both for the localization of maternal determinants to the posterior pole of the egg, oskar (osk) RNA, and for correct localization to the anterior pole, anchoring bicoid (bcd) RNA. The family also includes two Staufen homologs from vertebrates, Staufen 1 and Staufen 2. They are present in distinct ribonucleoprotein complexes and associate with different mRNAs. Staufen 1 may play a role in specific positioning of mRNAs at given sites in the cell by cross-linking cytoskeletal and RNA components, and in stimulating their translation at the site. It binds double-stranded RNA (regardless of the sequence) and tubulin. Staufen 2 is an RNA-binding protein required for the microtubule-dependent transport of neuronal RNA from the cell body to the dendrite. Staufen proteins contain five double-stranded RNA binding motifs (DSRMs). This model describes the first motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.


Pssm-ID: 380686  Cd Length: 64  Bit Score: 36.86  E-value: 4.68e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 17137682 1148 PYYKVVEASGPTNTRVYKVAVYFRSKRLATSSGSSIQQAEMNAAKQAL 1195
Cdd:cd19857   17 PQYTLVDEEGPAHKKTFTVKLTLGDEEEYEASGSSIKKAQHAAAEKAL 64
DSRM_SF cd00048
double-stranded RNA binding motif (DSRM) superfamily; DSRM (also known as dsRBM) is a 65-70 ...
 1148-1195 5.10e-03

double-stranded RNA binding motif (DSRM) superfamily; DSRM (also known as dsRBM) is a 65-70 amino acid domain that adopts an alpha-beta-beta-beta-alpha fold. It is not sequence specific, but highly specific for double-stranded RNAs (dsRNAs) of various origin and structure. The DSRM domains are found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila Staufen protein, E. coli RNase III, RNase H1, and dsRNA dependent adenosine deaminases. They are involved in numerous cellular mechanisms ranging from localization and transport of messenger RNAs, through maturation and degradation of RNAs, to viral response and signal transduction. Some members harbor tandem DSRMs that act in small RNA biogenesis.


Pssm-ID: 380679 [Multi-domain]  Cd Length: 57  Bit Score: 36.49  E-value: 5.10e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 17137682 1148 PYYKVVEaSGPTNTRVYKVAVYFRSKRlATSSGSSIQQAEMNAAKQAL 1195
Cdd:cd00048   12 PEYETVE-EGGPHNPRFTCTVTVNGQT-FEGEGKSKKEAKQAAAEKAL 57
 
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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