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Conserved domains on  [gi|354951928|ref|YP_004564622|]
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RNA-dependent RNA polymerase [Tuber aestivum mitovirus]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Mitovir_RNA_pol super family cl05469
Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus ...
230-524 1.46e-89

Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus RNA-dependent RNA polymerase proteins. The family also contains fragment matches in the mitochondria of Arabidopsis thaliana.


The actual alignment was detected with superfamily member pfam05919:

Pssm-ID: 253459  Cd Length: 495  Bit Score: 290.83  E-value: 1.46e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  230 IGKLAFKQEP-GKVRVFAMVDCITQWFLHPLHKYLFSVLRTTKEDATFDQEKGINLVRLALSkklDKSVFSFDLSAATDR 308
Cdd:pfam05919  85 LGKLAIKEDPeGKVRIFAMVDYWTQSVLKPLHDKLFKILRNIPQDGTFDQEPPLKRLTEKHK---SKYFYSFDLSAATDR 161
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  309 LPMDIQMVILNSLtpfwlaekavrhgVKGGLGDAWADLLVDRDYYlprwsgYARDSKVRYAVGQPMGALSSWAMLALTHH 388
Cdd:pfam05919 162 LPITLQKRILSHI-------------VGDSFGEAWRNLLVGRPYL------KVGGGPLRYSVGQPMGAYSSWAMLALTHH 222
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  389 MIVQFAAASVGVTgWFKEYMVLGDDIVIYNSEVAKAYSTLMGTLGVGISDTKSLTSKiGVFEFAKRLMDLEGPCQGLPLA 468
Cdd:pfam05919 223 LIVQVAAFRAGKS-RFTDYIILGDDIVIANDKVAKKYLEIMTDLGVEISLSKSHVSK-DTYEFAKRWIVNGGEISPLPLK 300
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 354951928  469 EFAAARFNLSILFQsfrsrtlypkisTFMRFLGFGYKVLGSLGMRLGDMRKRSGYF 524
Cdd:pfam05919 301 GILENLRNMYIVVA------------NLFDLLVRGLRLSGHSLQLLSSLLKFYKQY 344
 
Name Accession Description Interval E-value
Mitovir_RNA_pol pfam05919
Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus ...
230-524 1.46e-89

Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus RNA-dependent RNA polymerase proteins. The family also contains fragment matches in the mitochondria of Arabidopsis thaliana.


Pssm-ID: 253459  Cd Length: 495  Bit Score: 290.83  E-value: 1.46e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  230 IGKLAFKQEP-GKVRVFAMVDCITQWFLHPLHKYLFSVLRTTKEDATFDQEKGINLVRLALSkklDKSVFSFDLSAATDR 308
Cdd:pfam05919  85 LGKLAIKEDPeGKVRIFAMVDYWTQSVLKPLHDKLFKILRNIPQDGTFDQEPPLKRLTEKHK---SKYFYSFDLSAATDR 161
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  309 LPMDIQMVILNSLtpfwlaekavrhgVKGGLGDAWADLLVDRDYYlprwsgYARDSKVRYAVGQPMGALSSWAMLALTHH 388
Cdd:pfam05919 162 LPITLQKRILSHI-------------VGDSFGEAWRNLLVGRPYL------KVGGGPLRYSVGQPMGAYSSWAMLALTHH 222
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  389 MIVQFAAASVGVTgWFKEYMVLGDDIVIYNSEVAKAYSTLMGTLGVGISDTKSLTSKiGVFEFAKRLMDLEGPCQGLPLA 468
Cdd:pfam05919 223 LIVQVAAFRAGKS-RFTDYIILGDDIVIANDKVAKKYLEIMTDLGVEISLSKSHVSK-DTYEFAKRWIVNGGEISPLPLK 300
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 354951928  469 EFAAARFNLSILFQsfrsrtlypkisTFMRFLGFGYKVLGSLGMRLGDMRKRSGYF 524
Cdd:pfam05919 301 GILENLRNMYIVVA------------NLFDLLVRGLRLSGHSLQLLSSLLKFYKQY 344
ps-ssRNAv_Botourmiaviridae_RdRp cd23183
catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the family Botourmiaviridae of ...
238-445 2.91e-08

catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the family Botourmiaviridae of positive-sense single-stranded RNA [(+)ssRNA] viruses; This group contains the catalytic core domain of RdRp of RNA viruses belonging to the family Botourmiaviridae, order Ourlivirales. The family includes six genera: Ourmiavirus, Botoulivirus, Magoulivirus, Penoulivirus, Rhizoulivirus and Scleroulivirus. Family Botourmiaviridae genomes can be monopartite (Botoulivirus, Magoulivirus, Penoulivirus, Rhizoulivirus and Scleroulivirus) (2-3 kb) or tripartate (Ourmiavirus). Members of genus Ourmiavirus infect plants and the other genera infect fungi. Members of the genera Botoulivirus, Magoulivirus and Scleroulivirus infect fungi from the genera Botrytis, Magnaporthe or Sclerotinia, respectively. Members of the genus Ourmiavirus infect plants: Ourmia melon virus infects melon, producing chlorotic spots and irregular ringspots, Epirus cherry virus produces rasp-leaf symptoms in cherry, and cassava virus C induces severe stunting and a yellow mosaic pattern in cassava. Ourmiavirus replication is dependent on the virus RdRp. Synthesis of the ourmiavirus coat protein from actively replicating RNA3 is necessary for both virion assembly and systemic infection of the host. The ourmiavirus movement protein determines symptoms and forms tubular structures involved in cell-to-cell movement and may undergo post-translational modification. Botoulivirus, magoulivirus and scleroulivirus replication is strictly dependent on the virus RNA-dependent RNA polymerase. The RdRp domain displays a right hand with three functional subdomains, called fingers, palm, and thumb. All RdRps contain conserved polymerase motifs (A-G), located in the palm (A-E motifs) and finger (F-G) subdomains. All these motifs have been implicated in RdRp fidelity such as processes of correct incorporation and reorganization of nucleotides.


Pssm-ID: 438033  Cd Length: 223  Bit Score: 54.99  E-value: 2.91e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928 238 EPGKVRVFAMVDCITQWFLHPLHKYLFSVL----RTTKEDATFDQEKGINlvrlalSKKLDKSVFSFDLSAATDRLPMDI 313
Cdd:cd23183   17 EKGKPRVVTMGSAEVSEVLRPLHGALYDYLskkgWLLRGDVTPEKFSDIG------SRSEGEVFVSGDYSSATDNISIEV 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928 314 QMVILNSltpfwLAEKAvrHGVKGGLGDAWADLLVDRDYylprwsGYARDSKVRYAVGQPMGALSSWAMLALTHHMIVQF 393
Cdd:cd23183   91 VRAIVDV-----LCEKS--LSPRELFRRALVGHRILDVL------GDLELESGVQTRGQLMGSLLSFPLLCIINKAVFRY 157
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 354951928 394 AAASV-GVTGWFKEYMVL--GDDIVIY-NSEVAKAYSTLMGTLGVGISDTKSLTSK 445
Cdd:cd23183  158 ALEDLlGSGKELTEHPVLinGDDILFRgPRRLYARWRRVVSAVGLVVSPGKTFVSP 213
 
Name Accession Description Interval E-value
Mitovir_RNA_pol pfam05919
Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus ...
230-524 1.46e-89

Mitovirus RNA-dependent RNA polymerase; This family consists of several Mitovirus RNA-dependent RNA polymerase proteins. The family also contains fragment matches in the mitochondria of Arabidopsis thaliana.


Pssm-ID: 253459  Cd Length: 495  Bit Score: 290.83  E-value: 1.46e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  230 IGKLAFKQEP-GKVRVFAMVDCITQWFLHPLHKYLFSVLRTTKEDATFDQEKGINLVRLALSkklDKSVFSFDLSAATDR 308
Cdd:pfam05919  85 LGKLAIKEDPeGKVRIFAMVDYWTQSVLKPLHDKLFKILRNIPQDGTFDQEPPLKRLTEKHK---SKYFYSFDLSAATDR 161
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  309 LPMDIQMVILNSLtpfwlaekavrhgVKGGLGDAWADLLVDRDYYlprwsgYARDSKVRYAVGQPMGALSSWAMLALTHH 388
Cdd:pfam05919 162 LPITLQKRILSHI-------------VGDSFGEAWRNLLVGRPYL------KVGGGPLRYSVGQPMGAYSSWAMLALTHH 222
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928  389 MIVQFAAASVGVTgWFKEYMVLGDDIVIYNSEVAKAYSTLMGTLGVGISDTKSLTSKiGVFEFAKRLMDLEGPCQGLPLA 468
Cdd:pfam05919 223 LIVQVAAFRAGKS-RFTDYIILGDDIVIANDKVAKKYLEIMTDLGVEISLSKSHVSK-DTYEFAKRWIVNGGEISPLPLK 300
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 354951928  469 EFAAARFNLSILFQsfrsrtlypkisTFMRFLGFGYKVLGSLGMRLGDMRKRSGYF 524
Cdd:pfam05919 301 GILENLRNMYIVVA------------NLFDLLVRGLRLSGHSLQLLSSLLKFYKQY 344
ps-ssRNAv_Botourmiaviridae_RdRp cd23183
catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the family Botourmiaviridae of ...
238-445 2.91e-08

catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the family Botourmiaviridae of positive-sense single-stranded RNA [(+)ssRNA] viruses; This group contains the catalytic core domain of RdRp of RNA viruses belonging to the family Botourmiaviridae, order Ourlivirales. The family includes six genera: Ourmiavirus, Botoulivirus, Magoulivirus, Penoulivirus, Rhizoulivirus and Scleroulivirus. Family Botourmiaviridae genomes can be monopartite (Botoulivirus, Magoulivirus, Penoulivirus, Rhizoulivirus and Scleroulivirus) (2-3 kb) or tripartate (Ourmiavirus). Members of genus Ourmiavirus infect plants and the other genera infect fungi. Members of the genera Botoulivirus, Magoulivirus and Scleroulivirus infect fungi from the genera Botrytis, Magnaporthe or Sclerotinia, respectively. Members of the genus Ourmiavirus infect plants: Ourmia melon virus infects melon, producing chlorotic spots and irregular ringspots, Epirus cherry virus produces rasp-leaf symptoms in cherry, and cassava virus C induces severe stunting and a yellow mosaic pattern in cassava. Ourmiavirus replication is dependent on the virus RdRp. Synthesis of the ourmiavirus coat protein from actively replicating RNA3 is necessary for both virion assembly and systemic infection of the host. The ourmiavirus movement protein determines symptoms and forms tubular structures involved in cell-to-cell movement and may undergo post-translational modification. Botoulivirus, magoulivirus and scleroulivirus replication is strictly dependent on the virus RNA-dependent RNA polymerase. The RdRp domain displays a right hand with three functional subdomains, called fingers, palm, and thumb. All RdRps contain conserved polymerase motifs (A-G), located in the palm (A-E motifs) and finger (F-G) subdomains. All these motifs have been implicated in RdRp fidelity such as processes of correct incorporation and reorganization of nucleotides.


Pssm-ID: 438033  Cd Length: 223  Bit Score: 54.99  E-value: 2.91e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928 238 EPGKVRVFAMVDCITQWFLHPLHKYLFSVL----RTTKEDATFDQEKGINlvrlalSKKLDKSVFSFDLSAATDRLPMDI 313
Cdd:cd23183   17 EKGKPRVVTMGSAEVSEVLRPLHGALYDYLskkgWLLRGDVTPEKFSDIG------SRSEGEVFVSGDYSSATDNISIEV 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 354951928 314 QMVILNSltpfwLAEKAvrHGVKGGLGDAWADLLVDRDYylprwsGYARDSKVRYAVGQPMGALSSWAMLALTHHMIVQF 393
Cdd:cd23183   91 VRAIVDV-----LCEKS--LSPRELFRRALVGHRILDVL------GDLELESGVQTRGQLMGSLLSFPLLCIINKAVFRY 157
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 354951928 394 AAASV-GVTGWFKEYMVL--GDDIVIY-NSEVAKAYSTLMGTLGVGISDTKSLTSK 445
Cdd:cd23183  158 ALEDLlGSGKELTEHPVLinGDDILFRgPRRLYARWRRVVSAVGLVVSPGKTFVSP 213
 
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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