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Conserved domains on  [gi|663448529|gb|AIF28821|]
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RNA-dependent RNA polymerase [Thottapalayam virus]

Protein Classification

capSnatchArena and Bunya_RdRp domain-containing protein( domain architecture ID 10024541)

protein containing domains capSnatchArena, DUF3674, and Bunya_RdRp

Graphical summary

 Zoom to residue level

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List of domain hits

Name Accession Description Interval E-value
Bunya_RdRp super family cl20265
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
560-1285 4.15e-164

Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.


The actual alignment was detected with superfamily member pfam04196:

Pssm-ID: 282102  Cd Length: 739  Bit Score: 523.19  E-value: 4.15e-164
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   560 LDLNRLLALNICFEkaFLATAVWFQYFTEDQGmFPLQSSIKSVFAYKLLLAMTQKM-KVCALFDNLRYLIPSCTASYSGA 638
Cdd:pfam04196    1 LNKVRCLRLVKAPE--LFWKATYEVMYAVNPI-FYCTLTVKQILNFSSLLALLVTKpSLLEIFDPSRYVIMLGLSIYSNI 77
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   639 ASLIEKFVKRPFKSSLEVYVYIKSKELLISLAQNNKFRYYSKVRMLGLTVDQSSVGATGIYPSLVCHTVYRhYRSLISEI 718
Cdd:pfam04196   78 PSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITFPILST-LKELINNV 156
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   719 TTCFFLFEKGLHGTMTEEAKIHLETVEWANNFKEKEAKYG---------KDLVEFGY---TIEHLINDEIIPEQQLYCKN 786
Cdd:pfam04196  157 YLGFYLKNKGLHENHNVMIDLLKKILEWELKFREVRSKKLgkpvngailVHLVSISYladLCRHNLLRNRLENRHNFKAP 236
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   787 VIKLATLELNKVLT--SKSQVI--SNSIMNKHWEEPYFSQTRNIS-----LKGMSGKLQEDG--HLASSYTLIEAIRYLN 855
Cdd:pfam04196  237 ITTISTLTSSKLCLqiGTFAVIkaLQSNFSKNWLEKTSRKLRNINptfveDKGTNLEVGEDNyeHLSKAIEYIETKVKDK 316
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   856 KAKRNPT-VLELYNETRDIRAQARI-------VRKHQRTEADRGFFITTLPTRVRLEIIEDYFDSISKNVQEEYISYGGE 927
Cdd:pfam04196  317 LYEKNKSvVLKLKPEIEEPMDMMKKefcmhqcLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKD 396
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   928 KKILQIQGSLEKALRWASGTSTISLSTGD-QITFKRKLMYVSADATKWSPGDNSakFRLFTSHIHDGLKDRRLKHCVIDA 1006
Cdd:pfam04196  397 KKILAISEKHEMEARWTVEDTFKTLSTSDdAISKKNQLMHVSADMSKWSASDLT--YKYFFLIALLPILYPKEKFLGLYL 474
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1007 LKGI-YETEFFISRRLRGYIENMEELEHNVQEFLDFFdySKGRSGLVRGNWLQGNLNKCSSLFSVAISFLFKEMWSRLFP 1085
Cdd:pfam04196  475 LCNYmSKTDLLPSDILLNLVDQKYYGRYDIIFWMTNG--LNKNFVEVKRNWLQGNLNYTSSLVHSCAMEVYKEFLKRAIK 552
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1086 ELD--CFIEFAHHSDDALFIYGYLEPEGDGSDWYLYVtqkiqagelywhsvntEMWKTMFNMHEYLLLLGSVKVSPKKTT 1163
Cdd:pfam04196  553 LLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSV----------------LVANSAFRSKELIFKYLCIYASPKKTY 616
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1164 VSPTNAEFLSTF-FEGCAVSiPFSKILLGALSDLPGLGFFDDLAASQSRCVKALDMGASPQVAQLAVNLTNSKVERLYGT 1242
Cdd:pfam04196  617 VTLTVKEFNSEFfFSGEVSS-SLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          730       740       750       760
                   ....*....|....*....|....*....|....*....|....
gi 663448529  1243 APGMANNPCNYIDLDRDK-IPICLGGIGSSSILELATAGIGMSD 1285
Cdd:pfam04196  696 LPGQSNDPIFYLNRPNDKeIPILLGGLLDAPITALSLLGFKSND 739
capSnatchArena TIGR04202
RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature ...
95-164 5.82e-12

RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature region from an RNA endonuclease region associated with cap-snatching for mRNA production by RNA viruses. This domain usually is part of a multifunctional protein, the L protein responsible for RNA-dependent RNA polymerase activity. Cap-snatching is a viral alternative to synthesizing a eukaryotic-like mRNA cap itself.


:

Pssm-ID: 275049  Cd Length: 61  Bit Score: 62.60  E-value: 5.82e-12
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529    95 TPDNYKIEGTTIKFIEVTVTVDVEKGIYEKKKKYQGGFNqiqveldkywQQGKLPNKYTIVYDIVAVKAD 164
Cdd:TIGR04202    2 TPDNYKLTGNVLILLEVFVRVDPESFEKKYKEKYEKLLS----------LKGDLLSPGITLVPVVDGRTD 61
DUF3674 super family cl13813
RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 ...
198-230 8.35e-04

RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.


The actual alignment was detected with superfamily member pfam12426:

Pssm-ID: 289211  Cd Length: 41  Bit Score: 38.97  E-value: 8.35e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 663448529   198 LIRVNEKSALESMFNLKFHTHVEREFKYVLPEY 230
Cdd:pfam12426    1 LIKTEERAALEAMFNLKFNISTHKSQPYYIPDY 33
 
Name Accession Description Interval E-value
Bunya_RdRp pfam04196
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
560-1285 4.15e-164

Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.


Pssm-ID: 282102  Cd Length: 739  Bit Score: 523.19  E-value: 4.15e-164
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   560 LDLNRLLALNICFEkaFLATAVWFQYFTEDQGmFPLQSSIKSVFAYKLLLAMTQKM-KVCALFDNLRYLIPSCTASYSGA 638
Cdd:pfam04196    1 LNKVRCLRLVKAPE--LFWKATYEVMYAVNPI-FYCTLTVKQILNFSSLLALLVTKpSLLEIFDPSRYVIMLGLSIYSNI 77
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   639 ASLIEKFVKRPFKSSLEVYVYIKSKELLISLAQNNKFRYYSKVRMLGLTVDQSSVGATGIYPSLVCHTVYRhYRSLISEI 718
Cdd:pfam04196   78 PSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITFPILST-LKELINNV 156
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   719 TTCFFLFEKGLHGTMTEEAKIHLETVEWANNFKEKEAKYG---------KDLVEFGY---TIEHLINDEIIPEQQLYCKN 786
Cdd:pfam04196  157 YLGFYLKNKGLHENHNVMIDLLKKILEWELKFREVRSKKLgkpvngailVHLVSISYladLCRHNLLRNRLENRHNFKAP 236
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   787 VIKLATLELNKVLT--SKSQVI--SNSIMNKHWEEPYFSQTRNIS-----LKGMSGKLQEDG--HLASSYTLIEAIRYLN 855
Cdd:pfam04196  237 ITTISTLTSSKLCLqiGTFAVIkaLQSNFSKNWLEKTSRKLRNINptfveDKGTNLEVGEDNyeHLSKAIEYIETKVKDK 316
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   856 KAKRNPT-VLELYNETRDIRAQARI-------VRKHQRTEADRGFFITTLPTRVRLEIIEDYFDSISKNVQEEYISYGGE 927
Cdd:pfam04196  317 LYEKNKSvVLKLKPEIEEPMDMMKKefcmhqcLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKD 396
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   928 KKILQIQGSLEKALRWASGTSTISLSTGD-QITFKRKLMYVSADATKWSPGDNSakFRLFTSHIHDGLKDRRLKHCVIDA 1006
Cdd:pfam04196  397 KKILAISEKHEMEARWTVEDTFKTLSTSDdAISKKNQLMHVSADMSKWSASDLT--YKYFFLIALLPILYPKEKFLGLYL 474
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1007 LKGI-YETEFFISRRLRGYIENMEELEHNVQEFLDFFdySKGRSGLVRGNWLQGNLNKCSSLFSVAISFLFKEMWSRLFP 1085
Cdd:pfam04196  475 LCNYmSKTDLLPSDILLNLVDQKYYGRYDIIFWMTNG--LNKNFVEVKRNWLQGNLNYTSSLVHSCAMEVYKEFLKRAIK 552
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1086 ELD--CFIEFAHHSDDALFIYGYLEPEGDGSDWYLYVtqkiqagelywhsvntEMWKTMFNMHEYLLLLGSVKVSPKKTT 1163
Cdd:pfam04196  553 LLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSV----------------LVANSAFRSKELIFKYLCIYASPKKTY 616
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1164 VSPTNAEFLSTF-FEGCAVSiPFSKILLGALSDLPGLGFFDDLAASQSRCVKALDMGASPQVAQLAVNLTNSKVERLYGT 1242
Cdd:pfam04196  617 VTLTVKEFNSEFfFSGEVSS-SLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          730       740       750       760
                   ....*....|....*....|....*....|....*....|....
gi 663448529  1243 APGMANNPCNYIDLDRDK-IPICLGGIGSSSILELATAGIGMSD 1285
Cdd:pfam04196  696 LPGQSNDPIFYLNRPNDKeIPILLGGLLDAPITALSLLGFKSND 739
capSnatchArena TIGR04202
RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature ...
95-164 5.82e-12

RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature region from an RNA endonuclease region associated with cap-snatching for mRNA production by RNA viruses. This domain usually is part of a multifunctional protein, the L protein responsible for RNA-dependent RNA polymerase activity. Cap-snatching is a viral alternative to synthesizing a eukaryotic-like mRNA cap itself.


Pssm-ID: 275049  Cd Length: 61  Bit Score: 62.60  E-value: 5.82e-12
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529    95 TPDNYKIEGTTIKFIEVTVTVDVEKGIYEKKKKYQGGFNqiqveldkywQQGKLPNKYTIVYDIVAVKAD 164
Cdd:TIGR04202    2 TPDNYKLTGNVLILLEVFVRVDPESFEKKYKEKYEKLLS----------LKGDLLSPGITLVPVVDGRTD 61
DUF3674 pfam12426
RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 ...
198-230 8.35e-04

RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.


Pssm-ID: 289211  Cd Length: 41  Bit Score: 38.97  E-value: 8.35e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 663448529   198 LIRVNEKSALESMFNLKFHTHVEREFKYVLPEY 230
Cdd:pfam12426    1 LIKTEERAALEAMFNLKFNISTHKSQPYYIPDY 33
 
Name Accession Description Interval E-value
Bunya_RdRp pfam04196
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
560-1285 4.15e-164

Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.


Pssm-ID: 282102  Cd Length: 739  Bit Score: 523.19  E-value: 4.15e-164
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   560 LDLNRLLALNICFEkaFLATAVWFQYFTEDQGmFPLQSSIKSVFAYKLLLAMTQKM-KVCALFDNLRYLIPSCTASYSGA 638
Cdd:pfam04196    1 LNKVRCLRLVKAPE--LFWKATYEVMYAVNPI-FYCTLTVKQILNFSSLLALLVTKpSLLEIFDPSRYVIMLGLSIYSNI 77
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   639 ASLIEKFVKRPFKSSLEVYVYIKSKELLISLAQNNKFRYYSKVRMLGLTVDQSSVGATGIYPSLVCHTVYRhYRSLISEI 718
Cdd:pfam04196   78 PSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITFPILST-LKELINNV 156
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   719 TTCFFLFEKGLHGTMTEEAKIHLETVEWANNFKEKEAKYG---------KDLVEFGY---TIEHLINDEIIPEQQLYCKN 786
Cdd:pfam04196  157 YLGFYLKNKGLHENHNVMIDLLKKILEWELKFREVRSKKLgkpvngailVHLVSISYladLCRHNLLRNRLENRHNFKAP 236
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   787 VIKLATLELNKVLT--SKSQVI--SNSIMNKHWEEPYFSQTRNIS-----LKGMSGKLQEDG--HLASSYTLIEAIRYLN 855
Cdd:pfam04196  237 ITTISTLTSSKLCLqiGTFAVIkaLQSNFSKNWLEKTSRKLRNINptfveDKGTNLEVGEDNyeHLSKAIEYIETKVKDK 316
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   856 KAKRNPT-VLELYNETRDIRAQARI-------VRKHQRTEADRGFFITTLPTRVRLEIIEDYFDSISKNVQEEYISYGGE 927
Cdd:pfam04196  317 LYEKNKSvVLKLKPEIEEPMDMMKKefcmhqcLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKD 396
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529   928 KKILQIQGSLEKALRWASGTSTISLSTGD-QITFKRKLMYVSADATKWSPGDNSakFRLFTSHIHDGLKDRRLKHCVIDA 1006
Cdd:pfam04196  397 KKILAISEKHEMEARWTVEDTFKTLSTSDdAISKKNQLMHVSADMSKWSASDLT--YKYFFLIALLPILYPKEKFLGLYL 474
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1007 LKGI-YETEFFISRRLRGYIENMEELEHNVQEFLDFFdySKGRSGLVRGNWLQGNLNKCSSLFSVAISFLFKEMWSRLFP 1085
Cdd:pfam04196  475 LCNYmSKTDLLPSDILLNLVDQKYYGRYDIIFWMTNG--LNKNFVEVKRNWLQGNLNYTSSLVHSCAMEVYKEFLKRAIK 552
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1086 ELD--CFIEFAHHSDDALFIYGYLEPEGDGSDWYLYVtqkiqagelywhsvntEMWKTMFNMHEYLLLLGSVKVSPKKTT 1163
Cdd:pfam04196  553 LLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSV----------------LVANSAFRSKELIFKYLCIYASPKKTY 616
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529  1164 VSPTNAEFLSTF-FEGCAVSiPFSKILLGALSDLPGLGFFDDLAASQSRCVKALDMGASPQVAQLAVNLTNSKVERLYGT 1242
Cdd:pfam04196  617 VTLTVKEFNSEFfFSGEVSS-SLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          730       740       750       760
                   ....*....|....*....|....*....|....*....|....
gi 663448529  1243 APGMANNPCNYIDLDRDK-IPICLGGIGSSSILELATAGIGMSD 1285
Cdd:pfam04196  696 LPGQSNDPIFYLNRPNDKeIPILLGGLLDAPITALSLLGFKSND 739
capSnatchArena TIGR04202
RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature ...
95-164 5.82e-12

RNA endonuclease, cap-snatching, arenavirus family; This model describes a shared signature region from an RNA endonuclease region associated with cap-snatching for mRNA production by RNA viruses. This domain usually is part of a multifunctional protein, the L protein responsible for RNA-dependent RNA polymerase activity. Cap-snatching is a viral alternative to synthesizing a eukaryotic-like mRNA cap itself.


Pssm-ID: 275049  Cd Length: 61  Bit Score: 62.60  E-value: 5.82e-12
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 663448529    95 TPDNYKIEGTTIKFIEVTVTVDVEKGIYEKKKKYQGGFNqiqveldkywQQGKLPNKYTIVYDIVAVKAD 164
Cdd:TIGR04202    2 TPDNYKLTGNVLILLEVFVRVDPESFEKKYKEKYEKLLS----------LKGDLLSPGITLVPVVDGRTD 61
DUF3674 pfam12426
RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 ...
198-230 8.35e-04

RNA dependent RNA polymerase; This domain family is found in viruses, and is approximately 40 amino acids in length. There is a conserved MFNLKF sequence motif. There are two completely conserved residues (E and P) that may be functionally important.


Pssm-ID: 289211  Cd Length: 41  Bit Score: 38.97  E-value: 8.35e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 663448529   198 LIRVNEKSALESMFNLKFHTHVEREFKYVLPEY 230
Cdd:pfam12426    1 LIKTEERAALEAMFNLKFNISTHKSQPYYIPDY 33
 
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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