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Conserved domains on  [gi|190336489|ref|YP_001974409|]
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BV1 [Tomato yellow vein streak virus]

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 ...
 7-256 1.33e-89

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: 265.32  E-value: 1.33e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489    7 RRGWISNQRRGYSRqSFFKRSYYVKRTDGKR---RSSSTTQVNEESRLSQQRIHENQFGPEFVMvHNTAVSTFITFPNLG 83
Cdd:pfam00844   1 RRRLNFDSRRSRAR-APTRRSTNKKRGWSKRpmrRKGRSYRMYRSPPLKVQSFEINQFGPDFVV-SNTGKVSLISDPTRG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489   84 KTEPNRSRSYIKLKRLRFKGTVKIERLHTDMKMDciipnieGVFSLVIVVDRKPHLNPTGclhTFDELFGARIHSHGNLA 163
Cdd:pfam00844  79 KGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMT-------GVFSFWLVRDRRPHGNTPG---TFDELFGMYDNEPGTLT 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489  164 ITASLKDRFYIRHVWKKVISVEKDSMMVDLEGTTSLSNKRYNCWSAFKDLDHDSCNGVYANISKNALLVYYCWMSDTMST 243
Cdd:pfam00844 149 VKRDLRDRFVVKRKWKRVVSSEGDTNMVDFPGKNQLSVRRFFKWLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSG 228

                         250
                  ....*....|....*.
gi 190336489  244 ASSF---VSFDLDYVG 256
Cdd:pfam00844 229 ASTTkirVYFKLSYNG 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 ...
 7-256 1.33e-89

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: 265.32  E-value: 1.33e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489    7 RRGWISNQRRGYSRqSFFKRSYYVKRTDGKR---RSSSTTQVNEESRLSQQRIHENQFGPEFVMvHNTAVSTFITFPNLG 83
Cdd:pfam00844   1 RRRLNFDSRRSRAR-APTRRSTNKKRGWSKRpmrRKGRSYRMYRSPPLKVQSFEINQFGPDFVV-SNTGKVSLISDPTRG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489   84 KTEPNRSRSYIKLKRLRFKGTVKIERLHTDMKMDciipnieGVFSLVIVVDRKPHLNPTGclhTFDELFGARIHSHGNLA 163
Cdd:pfam00844  79 KGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMT-------GVFSFWLVRDRRPHGNTPG---TFDELFGMYDNEPGTLT 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489  164 ITASLKDRFYIRHVWKKVISVEKDSMMVDLEGTTSLSNKRYNCWSAFKDLDHDSCNGVYANISKNALLVYYCWMSDTMST 243
Cdd:pfam00844 149 VKRDLRDRFVVKRKWKRVVSSEGDTNMVDFPGKNQLSVRRFFKWLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSG 228

                         250
                  ....*....|....*.
gi 190336489  244 ASSF---VSFDLDYVG 256
Cdd:pfam00844 229 ASTTkirVYFKLSYNG 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 ...
 7-256 1.33e-89

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: 265.32  E-value: 1.33e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489    7 RRGWISNQRRGYSRqSFFKRSYYVKRTDGKR---RSSSTTQVNEESRLSQQRIHENQFGPEFVMvHNTAVSTFITFPNLG 83
Cdd:pfam00844   1 RRRLNFDSRRSRAR-APTRRSTNKKRGWSKRpmrRKGRSYRMYRSPPLKVQSFEINQFGPDFVV-SNTGKVSLISDPTRG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489   84 KTEPNRSRSYIKLKRLRFKGTVKIERLHTDMKMDciipnieGVFSLVIVVDRKPHLNPTGclhTFDELFGARIHSHGNLA 163
Cdd:pfam00844  79 KGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMT-------GVFSFWLVRDRRPHGNTPG---TFDELFGMYDNEPGTLT 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 190336489  164 ITASLKDRFYIRHVWKKVISVEKDSMMVDLEGTTSLSNKRYNCWSAFKDLDHDSCNGVYANISKNALLVYYCWMSDTMST 243
Cdd:pfam00844 149 VKRDLRDRFVVKRKWKRVVSSEGDTNMVDFPGKNQLSVRRFFKWLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPNSG 228

                         250
                  ....*....|....*.
gi 190336489  244 ASSF---VSFDLDYVG 256
Cdd:pfam00844 229 ASTTkirVYFKLSYNG 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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