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Conserved domains on  [gi|29243875|ref|NP_808737|]
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coat protein [Sida golden yellow vein virus-[A11]]

Protein Classification

capsid/nuclear shuttle family protein( domain architecture ID 10467201)

geminivirus capsid/nuclear shuttle family protein such as capsid (or coat) protein that encapsidates the viral DNA into characteristic twinned ('geminate') particles, and nuclear shuttle protein (NSP) that binds to the genomic viral ssDNA and shuttles it into and out of the cell nucleus

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gemini_coat pfam00844
Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 ...
 18-251 1.88e-96

Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 N-terminal amino acids of the maize streak virus coat protein bind DNA non- specifically. This family also includes various geminivirus movement proteins that are nuclear export factors or shuttles. One member BR1 facilitates the export of both ds and ss DNA form the nucleus.


:

Pssm-ID: 307130  Cd Length: 244  Bit Score: 282.27  E-value: 1.88e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    18 RRTLNFSPRGGGGPKQTRAS-----EWVNRPMYRKPLIYRTLRTPdvprgcegPCKVQSYE-----QRHDISHVGKVMCI 87
Cdd:pfam00844   1 RRRLNFDSRRSRARAPTRRStnkkrGWSKRPMRRKGRSYRMYRSP--------PLKVQSFEinqfgPDFVVSNTGKVSLI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    88 SDVTRGNGITHRVGKRFCVKSVYTLGKIWMDENIKLKNHTNSVMFWLVRDRRPYG-TPMDFGQVFNMYDNEPSTATIKND 166
Cdd:pfam00844  73 SDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPHGnTPGTFDELFGMYDNEPGTLTVKRD 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875   167 LRDRYQVMHRFYGKVTGGQ------YASNEQALVRRFWK-INNHVVYNHQEAGKYENHTENALLLYMACTHASNPVYATL 239
Cdd:pfam00844 153 LRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSGASTT 232

                         250
                  ....*....|..
gi 29243875   240 KIRIYFYDSITN 251
Cdd:pfam00844 233 KIRVYFKLSYNG 244
 
Name Accession Description Interval E-value
Gemini_coat pfam00844
Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 ...
 18-251 1.88e-96

Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 N-terminal amino acids of the maize streak virus coat protein bind DNA non- specifically. This family also includes various geminivirus movement proteins that are nuclear export factors or shuttles. One member BR1 facilitates the export of both ds and ss DNA form the nucleus.


Pssm-ID: 307130  Cd Length: 244  Bit Score: 282.27  E-value: 1.88e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    18 RRTLNFSPRGGGGPKQTRAS-----EWVNRPMYRKPLIYRTLRTPdvprgcegPCKVQSYE-----QRHDISHVGKVMCI 87
Cdd:pfam00844   1 RRRLNFDSRRSRARAPTRRStnkkrGWSKRPMRRKGRSYRMYRSP--------PLKVQSFEinqfgPDFVVSNTGKVSLI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    88 SDVTRGNGITHRVGKRFCVKSVYTLGKIWMDENIKLKNHTNSVMFWLVRDRRPYG-TPMDFGQVFNMYDNEPSTATIKND 166
Cdd:pfam00844  73 SDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPHGnTPGTFDELFGMYDNEPGTLTVKRD 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875   167 LRDRYQVMHRFYGKVTGGQ------YASNEQALVRRFWK-INNHVVYNHQEAGKYENHTENALLLYMACTHASNPVYATL 239
Cdd:pfam00844 153 LRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSGASTT 232

                         250
                  ....*....|..
gi 29243875   240 KIRIYFYDSITN 251
Cdd:pfam00844 233 KIRVYFKLSYNG 244
 
Name Accession Description Interval E-value
Gemini_coat pfam00844
Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 ...
 18-251 1.88e-96

Geminivirus coat protein/nuclear export factor BR1 family; It has been shown that the 104 N-terminal amino acids of the maize streak virus coat protein bind DNA non- specifically. This family also includes various geminivirus movement proteins that are nuclear export factors or shuttles. One member BR1 facilitates the export of both ds and ss DNA form the nucleus.


Pssm-ID: 307130  Cd Length: 244  Bit Score: 282.27  E-value: 1.88e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    18 RRTLNFSPRGGGGPKQTRAS-----EWVNRPMYRKPLIYRTLRTPdvprgcegPCKVQSYE-----QRHDISHVGKVMCI 87
Cdd:pfam00844   1 RRRLNFDSRRSRARAPTRRStnkkrGWSKRPMRRKGRSYRMYRSP--------PLKVQSFEinqfgPDFVVSNTGKVSLI 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875    88 SDVTRGNGITHRVGKRFCVKSVYTLGKIWMDENIKLKNHTNSVMFWLVRDRRPYG-TPMDFGQVFNMYDNEPSTATIKND 166
Cdd:pfam00844  73 SDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPHGnTPGTFDELFGMYDNEPGTLTVKRD 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 29243875   167 LRDRYQVMHRFYGKVTGGQ------YASNEQALVRRFWK-INNHVVYNHQEAGKYENHTENALLLYMACTHASNPVYATL 239
Cdd:pfam00844 153 LRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSGASTT 232

                         250
                  ....*....|..
gi 29243875   240 KIRIYFYDSITN 251
Cdd:pfam00844 233 KIRVYFKLSYNG 244
 
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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