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Conserved domains on  [gi|332290612|ref|YP_004421860|]
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L protein [Groundnut ringspot and Tomato chlorotic spot virus reassortant]

Protein Classification

Graphical summary

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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 ...
827-1670 0e+00

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: 703.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   827 LNQVRLLSLFKSPSkvpvCFAqfskKASELEKWLKNKDtekvnvFSMSVTVKQILInivFSSVMIGTVTKLSRMGIFDFM 906
Cdd:pfam04196    1 LNKVRCLRLVKAPE----LFW----KATYEVMYAVNPI------FYCTLTVKQILN---FSSLLALLVTKPSLLEIFDPS 63
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   907 RYAGFLPLSDYSNIKEYIRDKFDPDITNVADIYFVNGIKKLLFRMENLNLSTNAKPVVVDHENDVIGGITNLNIKCPITG 986
Cdd:pfam04196   64 RYVIMLGLSIYSNIPSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITF 143
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   987 STLLTLEDLYNNVYLAIYMMPKSLHNHVHNLTSLLNVPAEWELKFRKElgftiyediYPKKDMFddkdlfSINGLLNVKA 1066
Cdd:pfam04196  144 PILSTLKELINNVYLGFYLKNKGLHENHNVMIDLLKKILEWELKFREV---------RSKKLGK------PVNGAILVHL 208
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1067 LSDYYIENVENVGLMRSEIENKEDFLSPCYKITTLKSSKKCSQsniINTDDIIECLQTVKVKDVGNWKGNTLAIIKgliR 1146
Cdd:pfam04196  209 VSISYLADLCRHNLLRNRLENRHNFKAPITTISTLTSSKLCLQ---IGTFAVIKALQSNFSKNWLEKTSRKLRNIN---P 282
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1147 TYNEEKNRLIEFLEDNcvnslylLEKLKEIISsgsvtvrksmtskfirnnhplTVETYLKTKLYYRNNVTVLKSKKVSEE 1226
Cdd:pfam04196  283 TFVEDKGTNLEVGEDN-------YEHLSKAIE---------------------YIETKVKDKLYEKNKSVVLKLKPEIEE 334
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1227 LYDLVKqfhnmMEIDIDSVMNLGKGLEGKKHTFLQMLEFVISKAKNVTGSVDFLVSVFEKMQRTKTDREIYLMSMKVKMM 1306
Cdd:pfam04196  335 PMDMMK-----KEFCMHQCLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKDKKILAISEKHEME 409
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1307 L-YFIEHTFKHIAQSDPSeaisisgdnkiralstlsldtitsyndilnkNSRKSRLAFLSADQSKWSASDLTYKYILAIL 1385
Cdd:pfam04196  410 ArWTVEDTFKTLSTSDDA-------------------------------ISKKNQLMHVSADMSKWSASDLTYKYFFLIA 458
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1386 LNPVLTTGEASLMVECLLMYvKLKKVCIPTDIFLNLKKSQSTFRqnETAIGLLTKGLTTNTYPVSMNWLQGNLNYLSSVY 1465
Cdd:pfam04196  459 LLPILYPKEKFLGLYLLCNY-MSKTDLLPSDILLNLVDQKYYGR--YDIIFWMTNGLNKNFVEVKRNWLQGNLNYTSSLV 535
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1466 HSCAMKAYHKTL-ECYKGCD--FQTRWIVHSDDNATSLIANGEVDKMLLDFSSSSLPEMLFRSIEAHFKSFCITLNPKKS 1542
Cdd:pfam04196  536 HSCAMEVYKEFLkRAIKLLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSVLVANSAFRSKELIFKYLCIYASPKKT 615
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1543 YASSSEVEFISERIVNGAIIPLYCRHLANCCTESSHISYFDDLMSLSIHVTMLLRKGCPNEVIPFAYGAVQAQALSIYSM 1622
Cdd:pfam04196  616 YVTLTVKEFNSEFFFSGEVSSSLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          810       820       830       840
                   ....*....|....*....|....*....|....*....|....*...
gi 332290612  1623 LPGEVNDSIRIFQKLGVslmpNEIPTNMGGWLTAPIEPLSILGPSSND 1670
Cdd:pfam04196  696 LPGQSNDPIFYLNRPND----KEIPILLGGLLDAPITALSLLGFKSND 739
PDDEXK_nuclease-like super family cl40440
PDDEXK family nucleases; Superfamily of PDDEXK nucleases including very short patch repair ...
162-204 3.70e-03

PDDEXK family nucleases; Superfamily of PDDEXK nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


The actual alignment was detected with superfamily member cd22349:

Pssm-ID: 477358  Cd Length: 182  Bit Score: 40.99  E-value: 3.70e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 332290612  162 NATPDNYVIYKEsknselCLMIYDWKISVDAKTETKTMEKYYK 204
Cdd:cd22349    74 NITPDNYLFDNN------KLYIIDYKVSVSDESSIITYEKYNE 110
 
Name Accession Description Interval E-value
Bunya_RdRp pfam04196
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
827-1670 0e+00

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: 703.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   827 LNQVRLLSLFKSPSkvpvCFAqfskKASELEKWLKNKDtekvnvFSMSVTVKQILInivFSSVMIGTVTKLSRMGIFDFM 906
Cdd:pfam04196    1 LNKVRCLRLVKAPE----LFW----KATYEVMYAVNPI------FYCTLTVKQILN---FSSLLALLVTKPSLLEIFDPS 63
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   907 RYAGFLPLSDYSNIKEYIRDKFDPDITNVADIYFVNGIKKLLFRMENLNLSTNAKPVVVDHENDVIGGITNLNIKCPITG 986
Cdd:pfam04196   64 RYVIMLGLSIYSNIPSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITF 143
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   987 STLLTLEDLYNNVYLAIYMMPKSLHNHVHNLTSLLNVPAEWELKFRKElgftiyediYPKKDMFddkdlfSINGLLNVKA 1066
Cdd:pfam04196  144 PILSTLKELINNVYLGFYLKNKGLHENHNVMIDLLKKILEWELKFREV---------RSKKLGK------PVNGAILVHL 208
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1067 LSDYYIENVENVGLMRSEIENKEDFLSPCYKITTLKSSKKCSQsniINTDDIIECLQTVKVKDVGNWKGNTLAIIKgliR 1146
Cdd:pfam04196  209 VSISYLADLCRHNLLRNRLENRHNFKAPITTISTLTSSKLCLQ---IGTFAVIKALQSNFSKNWLEKTSRKLRNIN---P 282
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1147 TYNEEKNRLIEFLEDNcvnslylLEKLKEIISsgsvtvrksmtskfirnnhplTVETYLKTKLYYRNNVTVLKSKKVSEE 1226
Cdd:pfam04196  283 TFVEDKGTNLEVGEDN-------YEHLSKAIE---------------------YIETKVKDKLYEKNKSVVLKLKPEIEE 334
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1227 LYDLVKqfhnmMEIDIDSVMNLGKGLEGKKHTFLQMLEFVISKAKNVTGSVDFLVSVFEKMQRTKTDREIYLMSMKVKMM 1306
Cdd:pfam04196  335 PMDMMK-----KEFCMHQCLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKDKKILAISEKHEME 409
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1307 L-YFIEHTFKHIAQSDPSeaisisgdnkiralstlsldtitsyndilnkNSRKSRLAFLSADQSKWSASDLTYKYILAIL 1385
Cdd:pfam04196  410 ArWTVEDTFKTLSTSDDA-------------------------------ISKKNQLMHVSADMSKWSASDLTYKYFFLIA 458
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1386 LNPVLTTGEASLMVECLLMYvKLKKVCIPTDIFLNLKKSQSTFRqnETAIGLLTKGLTTNTYPVSMNWLQGNLNYLSSVY 1465
Cdd:pfam04196  459 LLPILYPKEKFLGLYLLCNY-MSKTDLLPSDILLNLVDQKYYGR--YDIIFWMTNGLNKNFVEVKRNWLQGNLNYTSSLV 535
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1466 HSCAMKAYHKTL-ECYKGCD--FQTRWIVHSDDNATSLIANGEVDKMLLDFSSSSLPEMLFRSIEAHFKSFCITLNPKKS 1542
Cdd:pfam04196  536 HSCAMEVYKEFLkRAIKLLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSVLVANSAFRSKELIFKYLCIYASPKKT 615
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1543 YASSSEVEFISERIVNGAIIPLYCRHLANCCTESSHISYFDDLMSLSIHVTMLLRKGCPNEVIPFAYGAVQAQALSIYSM 1622
Cdd:pfam04196  616 YVTLTVKEFNSEFFFSGEVSSSLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          810       820       830       840
                   ....*....|....*....|....*....|....*....|....*...
gi 332290612  1623 LPGEVNDSIRIFQKLGVslmpNEIPTNMGGWLTAPIEPLSILGPSSND 1670
Cdd:pfam04196  696 LPGQSNDPIFYLNRPND----KEIPILLGGLLDAPITALSLLGFKSND 739
PDDEXK_RNA_polymerase-like cd22349
Endonuclease domain of segmented negative-strand RNA virus (sNSV) polymerases; The N-terminal ...
162-204 3.70e-03

Endonuclease domain of segmented negative-strand RNA virus (sNSV) polymerases; The N-terminal endonuclease domain of sNSV polymerases is essential for viral cap-dependent transcription; it has endonuclease activity and belongs to a superfamily of PDDEXK nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411753  Cd Length: 182  Bit Score: 40.99  E-value: 3.70e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 332290612  162 NATPDNYVIYKEsknselCLMIYDWKISVDAKTETKTMEKYYK 204
Cdd:cd22349    74 NITPDNYLFDNN------KLYIIDYKVSVSDESSIITYEKYNE 110
 
Name Accession Description Interval E-value
Bunya_RdRp pfam04196
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
827-1670 0e+00

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: 703.85  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   827 LNQVRLLSLFKSPSkvpvCFAqfskKASELEKWLKNKDtekvnvFSMSVTVKQILInivFSSVMIGTVTKLSRMGIFDFM 906
Cdd:pfam04196    1 LNKVRCLRLVKAPE----LFW----KATYEVMYAVNPI------FYCTLTVKQILN---FSSLLALLVTKPSLLEIFDPS 63
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   907 RYAGFLPLSDYSNIKEYIRDKFDPDITNVADIYFVNGIKKLLFRMENLNLSTNAKPVVVDHENDVIGGITNLNIKCPITG 986
Cdd:pfam04196   64 RYVIMLGLSIYSNIPSYIAKKFEPLSKTLRSVYMVRLIKRLLFTLFDQNGEPFKRSIYLGDLNDDQKGITNERLLDSITF 143
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612   987 STLLTLEDLYNNVYLAIYMMPKSLHNHVHNLTSLLNVPAEWELKFRKElgftiyediYPKKDMFddkdlfSINGLLNVKA 1066
Cdd:pfam04196  144 PILSTLKELINNVYLGFYLKNKGLHENHNVMIDLLKKILEWELKFREV---------RSKKLGK------PVNGAILVHL 208
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1067 LSDYYIENVENVGLMRSEIENKEDFLSPCYKITTLKSSKKCSQsniINTDDIIECLQTVKVKDVGNWKGNTLAIIKgliR 1146
Cdd:pfam04196  209 VSISYLADLCRHNLLRNRLENRHNFKAPITTISTLTSSKLCLQ---IGTFAVIKALQSNFSKNWLEKTSRKLRNIN---P 282
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1147 TYNEEKNRLIEFLEDNcvnslylLEKLKEIISsgsvtvrksmtskfirnnhplTVETYLKTKLYYRNNVTVLKSKKVSEE 1226
Cdd:pfam04196  283 TFVEDKGTNLEVGEDN-------YEHLSKAIE---------------------YIETKVKDKLYEKNKSVVLKLKPEIEE 334
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1227 LYDLVKqfhnmMEIDIDSVMNLGKGLEGKKHTFLQMLEFVISKAKNVTGSVDFLVSVFEKMQRTKTDREIYLMSMKVKMM 1306
Cdd:pfam04196  335 PMDMMK-----KEFCMHQCLNKGQQTEGDREIFVLNLEERMCQYAVERISRAILKLNPSEMISEPKDKKILAISEKHEME 409
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1307 L-YFIEHTFKHIAQSDPSeaisisgdnkiralstlsldtitsyndilnkNSRKSRLAFLSADQSKWSASDLTYKYILAIL 1385
Cdd:pfam04196  410 ArWTVEDTFKTLSTSDDA-------------------------------ISKKNQLMHVSADMSKWSASDLTYKYFFLIA 458
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1386 LNPVLTTGEASLMVECLLMYvKLKKVCIPTDIFLNLKKSQSTFRqnETAIGLLTKGLTTNTYPVSMNWLQGNLNYLSSVY 1465
Cdd:pfam04196  459 LLPILYPKEKFLGLYLLCNY-MSKTDLLPSDILLNLVDQKYYGR--YDIIFWMTNGLNKNFVEVKRNWLQGNLNYTSSLV 535
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1466 HSCAMKAYHKTL-ECYKGCD--FQTRWIVHSDDNATSLIANGEVDKMLLDFSSSSLPEMLFRSIEAHFKSFCITLNPKKS 1542
Cdd:pfam04196  536 HSCAMEVYKEFLkRAIKLLDgsCLVNSIVHSDDSQTSISIPCHVDDKQADFKSVLVANSAFRSKELIFKYLCIYASPKKT 615
                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332290612  1543 YASSSEVEFISERIVNGAIIPLYCRHLANCCTESSHISYFDDLMSLSIHVTMLLRKGCPNEVIPFAYGAVQAQALSIYSM 1622
Cdd:pfam04196  616 YVTLTVKEFNSEFFFSGEVSSSLLRWLLASVSDCAAEGLSDDLASLSSSLTNLLKLGCSPSLAWLAQAAVHSITYRLYGM 695
                          810       820       830       840
                   ....*....|....*....|....*....|....*....|....*...
gi 332290612  1623 LPGEVNDSIRIFQKLGVslmpNEIPTNMGGWLTAPIEPLSILGPSSND 1670
Cdd:pfam04196  696 LPGQSNDPIFYLNRPND----KEIPILLGGLLDAPITALSLLGFKSND 739
PDDEXK_RNA_polymerase-like cd22349
Endonuclease domain of segmented negative-strand RNA virus (sNSV) polymerases; The N-terminal ...
162-204 3.70e-03

Endonuclease domain of segmented negative-strand RNA virus (sNSV) polymerases; The N-terminal endonuclease domain of sNSV polymerases is essential for viral cap-dependent transcription; it has endonuclease activity and belongs to a superfamily of PDDEXK nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411753  Cd Length: 182  Bit Score: 40.99  E-value: 3.70e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 332290612  162 NATPDNYVIYKEsknselCLMIYDWKISVDAKTETKTMEKYYK 204
Cdd:cd22349    74 NITPDNYLFDNN------KLYIIDYKVSVSDESSIITYEKYNE 110
 
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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