NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|6323666|ref|NP_013737|]
View 

mitochondrial 54S ribosomal protein YmL3 [Saccharomyces cerevisiae S288C]

Protein Classification

ribonuclease III family protein( domain architecture ID 1003933)

ribonuclease III family protein similar to ribonuclease III, which digests double-stranded RNA in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S)

CATH:  1.10.1520.10
Gene Ontology:  GO:0006396
SCOP:  4002876

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
DSRM_MRPL3_like cd19873
double-stranded RNA binding motif of Saccharomyces cerevisiae mitochondrial 54S ribosomal ...
 290-373 4.09e-43

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: 145.05  E-value: 4.09e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  290 RKLDITKMFQFEQPTRELAMLCRREGLEKPVSKLVAESGRLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMK 369
Cdd:cd19873   1 RPLDISDLIKLENPKRTLSALLKREGLEPPVSRLLKESGRASHTPTFVVGVYSGSQKLGEGAGSSIKMAEIRAARDALRK 80


                ....
gi 6323666  370 WYCY 373
Cdd:cd19873  81 HYLY 84
RIBOc smart00535
Ribonuclease III family;
114-288 4.60e-17

Ribonuclease III family;


:

Pssm-ID: 197778  Cd Length: 129  Bit Score: 76.87  E-value: 4.60e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     114 STLSRCLTCPSAKlpdkinnptkgaafvntvptNKYLDNHGLNIMGKNLLSYHVTKSIIQKYPRLPTVVLNAAVNAYISE 193
Cdd:smart00535   1 SLLLRALTHASYS--------------------NEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSN 60

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     194 AVLAHIAKYWGIEvettsvlsRYLKMEPFeftlgrlkffnnslnskdgiELITGKNfSETSALAMSVRSIIAAIWavtEQ 273
Cdd:smart00535  61 ETLARLAKKLGLG--------EFIRLGRG--------------------EAISGGR-DKPKILADVFEALIGAIY---LD 108

                          170
                   ....*....|....*
gi 6323666     274 KDSQAVYRFIDDHIM 288
Cdd:smart00535 109 SGLEAAREFIRDLLG 123
 
Name Accession Description Interval E-value
DSRM_MRPL3_like cd19873
double-stranded RNA binding motif of Saccharomyces cerevisiae mitochondrial 54S ribosomal ...
 290-373 4.09e-43

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: 145.05  E-value: 4.09e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  290 RKLDITKMFQFEQPTRELAMLCRREGLEKPVSKLVAESGRLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMK 369
Cdd:cd19873   1 RPLDISDLIKLENPKRTLSALLKREGLEPPVSRLLKESGRASHTPTFVVGVYSGSQKLGEGAGSSIKMAEIRAARDALRK 80


                ....
gi 6323666  370 WYCY 373
Cdd:cd19873  81 HYLY 84
RIBOc smart00535
Ribonuclease III family;
114-288 4.60e-17

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 76.87  E-value: 4.60e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     114 STLSRCLTCPSAKlpdkinnptkgaafvntvptNKYLDNHGLNIMGKNLLSYHVTKSIIQKYPRLPTVVLNAAVNAYISE 193
Cdd:smart00535   1 SLLLRALTHASYS--------------------NEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSN 60

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     194 AVLAHIAKYWGIEvettsvlsRYLKMEPFeftlgrlkffnnslnskdgiELITGKNfSETSALAMSVRSIIAAIWavtEQ 273
Cdd:smart00535  61 ETLARLAKKLGLG--------EFIRLGRG--------------------EAISGGR-DKPKILADVFEALIGAIY---LD 108

                          170
                   ....*....|....*
gi 6323666     274 KDSQAVYRFIDDHIM 288
Cdd:smart00535 109 SGLEAAREFIRDLLG 123
DSRM smart00358
Double-stranded RNA binding motif;
303-371 2.89e-13

Double-stranded RNA binding motif;


Pssm-ID: 214634 [Multi-domain]  Cd Length: 67  Bit Score: 64.21  E-value: 2.89e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323666     303 PTRELAMLCRREGLEkPVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKWY 371
Cdd:smart00358   1 PKSLLQELAQKRKLP-PEYELVKEEGP-DHAPRFTVTVKVGGKRTGEGEGSSKKEAKQRAAEAALRSLK 67
Rnc COG0571
dsRNA-specific ribonuclease [Transcription];
163-369 2.29e-10

dsRNA-specific ribonuclease [Transcription];


Pssm-ID: 440336 [Multi-domain]  Cd Length: 229  Bit Score: 60.11  E-value: 2.29e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  163 LSYHVTKSIIQKYPRLP----TVVLNAAVnayiSEAVLAHIAKYWGievettsvLSRYLKmepfeftLGRlkffnnslns 238
Cdd:COG0571  51 LGLVVAEYLYRRFPDAPegelSKLRAALV----SEETLAEIARELG--------LGDYLR-------LGK---------- 101

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  239 kdGiELITGKnFSETSALAMSVRSIIAAIWavteqKDS--QAVYRFIDDHIMSRKLDITKMFQFEQP-TR--ELAMlcrR 313
Cdd:COG0571 102 --G-EEKSGG-RRRPSILADAFEALIGAIY-----LDGglEAARKFVLRLFEPRLEEIAPGGAGKDYkTAlqEWLQ---A 169

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 6323666  314 EGLEKPVSKLVAESGrLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMK 369
Cdd:COG0571 170 RGLPLPEYEVVEEEG-PDHAKTFTVEVLVGGKVLGEGTGRSKKEAEQAAAKAALEK 224
Ribonuclease_3 pfam00636
Ribonuclease III domain;
155-268 7.72e-09

Ribonuclease III domain;


Pssm-ID: 459883  Cd Length: 101  Bit Score: 52.66  E-value: 7.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666    155 LNIMGKNLLSYHVTKSIIQKYPRLPTVVLNAAVNAYISEAVLAHIAKYWGIEvettsvlsRYLKMEPFEFTLGRLKFFNN 234
Cdd:pfam00636   3 LEFLGDAVLELYVREYLFEKFPDLREGDLHRLRSALVSNEALAKLARKLGLE--------KFLTEEELDIRRRNNALGKG 74

                          90       100       110
                  ....*....|....*....|....*....|....
gi 6323666    235 SLNSKDgielitgknfsETSALAMSVRSIIAAIW 268
Cdd:pfam00636  75 PKRADG-----------KEKVLADAFEALIGALY 97
dsrm pfam00035
Double-stranded RNA binding motif; Sequences gathered for seed by HMM_iterative_training ...
 310-367 2.51e-06

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: 44.53  E-value: 2.51e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 6323666    310 LCRREGLeKPVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDAL 367
Cdd:pfam00035   8 YAQKNGK-PPPYEYVSEEGP-PHSPKFTVTVKVDGKLYGSGTGSSKKEAEQLAAEKAL 63
 
Name Accession Description Interval E-value
DSRM_MRPL3_like cd19873
double-stranded RNA binding motif of Saccharomyces cerevisiae mitochondrial 54S ribosomal ...
 290-373 4.09e-43

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: 145.05  E-value: 4.09e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  290 RKLDITKMFQFEQPTRELAMLCRREGLEKPVSKLVAESGRLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMK 369
Cdd:cd19873   1 RPLDISDLIKLENPKRTLSALLKREGLEPPVSRLLKESGRASHTPTFVVGVYSGSQKLGEGAGSSIKMAEIRAARDALRK 80


                ....
gi 6323666  370 WYCY 373
Cdd:cd19873  81 HYLY 84
DSRM_mL44_subfamily cd20315
double-stranded RNA binding motif of mL44 subfamily proteins; The mitochondrion-specific ...
 301-371 6.87e-35

double-stranded RNA binding motif of mL44 subfamily proteins; The mitochondrion-specific ribosomal protein mL44 subfamily is composed of mitochondrial 54S ribosomal protein L3 (MRPL3) and mitochondrial 39S ribosomal protein L44 (MRPL44). MRPL3 (also known as 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. MRPL44 (also called L44mt, MRP-L44, or mitochondrial large ribosomal subunit protein mL44) is a component of the 39S subunit of mitochondrial ribosome. It may play a role in the assembly/stability of nascent mitochondrial polypeptides exiting the ribosome. Members of this family contain 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: 380747  Cd Length: 71  Bit Score: 122.99  E-value: 6.87e-35
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323666  301 EQPTRELAMLCRREGLEKPVSKLVAESGRLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKWY 371
Cdd:cd20315   1 ENPTRELAEILRREGIEKPVSRLIAESGRLTKSPVYIVGVYCDEETIGEGYGYSIKEAKAEAATDALMKLF 71
RIBOc smart00535
Ribonuclease III family;
114-288 4.60e-17

Ribonuclease III family;


Pssm-ID: 197778  Cd Length: 129  Bit Score: 76.87  E-value: 4.60e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     114 STLSRCLTCPSAKlpdkinnptkgaafvntvptNKYLDNHGLNIMGKNLLSYHVTKSIIQKYPRLPTVVLNAAVNAYISE 193
Cdd:smart00535   1 SLLLRALTHASYS--------------------NEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSN 60

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666     194 AVLAHIAKYWGIEvettsvlsRYLKMEPFeftlgrlkffnnslnskdgiELITGKNfSETSALAMSVRSIIAAIWavtEQ 273
Cdd:smart00535  61 ETLARLAKKLGLG--------EFIRLGRG--------------------EAISGGR-DKPKILADVFEALIGAIY---LD 108

                          170
                   ....*....|....*
gi 6323666     274 KDSQAVYRFIDDHIM 288
Cdd:smart00535 109 SGLEAAREFIRDLLG 123
DSRM smart00358
Double-stranded RNA binding motif;
303-371 2.89e-13

Double-stranded RNA binding motif;


Pssm-ID: 214634 [Multi-domain]  Cd Length: 67  Bit Score: 64.21  E-value: 2.89e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323666     303 PTRELAMLCRREGLEkPVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKWY 371
Cdd:smart00358   1 PKSLLQELAQKRKLP-PEYELVKEEGP-DHAPRFTVTVKVGGKRTGEGEGSSKKEAKQRAAEAALRSLK 67
DSRM_MRPL44 cd19874
double-stranded RNA binding motif of mitochondrial 39S ribosomal protein L44 (MRPL44) and ...
 293-371 8.85e-13

double-stranded RNA binding motif of mitochondrial 39S ribosomal protein L44 (MRPL44) and similar proteins; MRPL44 (also known as L44mt, MRP-L44, or mitochondrial large ribosomal subunit protein mL44) is a component of the 39S subunit of mitochondrial ribosome. It may play a role in the assembly/stability of nascent mitochondrial polypeptides exiting the ribosome. MRPL44 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: 380703  Cd Length: 84  Bit Score: 63.38  E-value: 8.85e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323666  293 DITKMFQFEQPTRELAMLCRREGLEKPVSKLVAESGRLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKWY 371
Cdd:cd19874   4 DLNEIWTPANPMGLLVEILQKRGLPPPEPRLIRQSGANTVLPVYFVGLYSDKKLIGEGPGESILIAEEMAARDALRRLF 82
Rnc COG0571
dsRNA-specific ribonuclease [Transcription];
163-369 2.29e-10

dsRNA-specific ribonuclease [Transcription];


Pssm-ID: 440336 [Multi-domain]  Cd Length: 229  Bit Score: 60.11  E-value: 2.29e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  163 LSYHVTKSIIQKYPRLP----TVVLNAAVnayiSEAVLAHIAKYWGievettsvLSRYLKmepfeftLGRlkffnnslns 238
Cdd:COG0571  51 LGLVVAEYLYRRFPDAPegelSKLRAALV----SEETLAEIARELG--------LGDYLR-------LGK---------- 101

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666  239 kdGiELITGKnFSETSALAMSVRSIIAAIWavteqKDS--QAVYRFIDDHIMSRKLDITKMFQFEQP-TR--ELAMlcrR 313
Cdd:COG0571 102 --G-EEKSGG-RRRPSILADAFEALIGAIY-----LDGglEAARKFVLRLFEPRLEEIAPGGAGKDYkTAlqEWLQ---A 169

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 6323666  314 EGLEKPVSKLVAESGrLSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMK 369
Cdd:COG0571 170 RGLPLPEYEVVEEEG-PDHAKTFTVEVLVGGKVLGEGTGRSKKEAEQAAAKAALEK 224
DSRM_RNAse_III_family cd10845
double-stranded RNA binding motif of ribonuclease III (RNase III) and similar proteins; RNase ...
 310-370 1.19e-09

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: 54.04  E-value: 1.19e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323666  310 LCRREGLEKPVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKW 370
Cdd:cd10845  10 YLQKRGLPLPEYELVEEEGP-DHNKTFTVEVKVNGKVIGEGTGRSKKEAEQAAAKAALEKL 69
Ribonuclease_3 pfam00636
Ribonuclease III domain;
155-268 7.72e-09

Ribonuclease III domain;


Pssm-ID: 459883  Cd Length: 101  Bit Score: 52.66  E-value: 7.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323666    155 LNIMGKNLLSYHVTKSIIQKYPRLPTVVLNAAVNAYISEAVLAHIAKYWGIEvettsvlsRYLKMEPFEFTLGRLKFFNN 234
Cdd:pfam00636   3 LEFLGDAVLELYVREYLFEKFPDLREGDLHRLRSALVSNEALAKLARKLGLE--------KFLTEEELDIRRRNNALGKG 74

                          90       100       110
                  ....*....|....*....|....*....|....
gi 6323666    235 SLNSKDgielitgknfsETSALAMSVRSIIAAIW 268
Cdd:pfam00636  75 PKRADG-----------KEKVLADAFEALIGALY 97
dsrm pfam00035
Double-stranded RNA binding motif; Sequences gathered for seed by HMM_iterative_training ...
 310-367 2.51e-06

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: 44.53  E-value: 2.51e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 6323666    310 LCRREGLeKPVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDAL 367
Cdd:pfam00035   8 YAQKNGK-PPPYEYVSEEGP-PHSPKFTVTVKVDGKLYGSGTGSSKKEAEQLAAEKAL 63
DSRM_SF cd00048
double-stranded RNA binding motif (DSRM) superfamily; DSRM (also known as dsRBM) is a 65-70 ...
 310-367 2.42e-05

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: 41.50  E-value: 2.42e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 6323666  310 LCRREGLEKPVSKLVAESGrlSKSPVFIVHVFSGEETlGEGYGSSLKEAKARAATDAL 367
Cdd:cd00048   3 LCQKNKWPPPEYETVEEGG--PHNPRFTCTVTVNGQT-FEGEGKSKKEAKQAAAEKAL 57
DSRM_RNAse_III_meta_like cd19877
double-stranded RNA binding motif of metazoan ribonuclease III (RNase III) and similar ...
 309-367 7.59e-04

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: 38.02  E-value: 7.59e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323666  309 MLCRREGLEK--PVSKLVAESGRlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDAL 367
Cdd:cd19877  13 TLRTEGKKEPdiPEYKVLQKSGP-TNTRVYTVAVYFRGERIATGTGSSIQQAEMNAAEKAL 72
DSRM_RNT1p-like cd19876
double-stranded RNA binding motif of Saccharomyces cerevisiae ribonuclease 3 (RNT1p) and ...
 318-370 1.16e-03

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: 37.32  E-value: 1.16e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 6323666  318 KPVSKLVAESGrlSKSPVFIVHVFSGEETLGEGYGSSLKEAKARAATDALMKW 370
Cdd:cd19876  18 KPEYVVVKKEG--GNDPNYTVACRINGEVLGTGVGRSIKKAGQRAAMSALSNK 68
 
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