NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|116563992|gb|ABJ99994|]
View 

coat protein, partial [Cotton leaf curl Rajasthan 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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 1-170 6.34e-77

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: 229.50  E-value: 6.34e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992    1 GKVMCVSDVTRGTGLTHRVGKRFCVKSVYVLGKIWMDENIKTKNHTNSVMLFLVRDRRP-VDKPQDFGEVFNMFDNEPST 79
Cdd:pfam00844  67 GKVSLISDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPhGNTPGTFDELFGMYDNEPGT 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992   80 ATVKNVHRDRYQVLRKWYATVTGGQ------YASKEQALVKKFVR-VNNYVVYNQQEAGKYENHTENALMLYMACTHASN 152
Cdd:pfam00844 147 LTVKRDLRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPN 226

                         170
                  ....*....|....*...
gi 116563992  153 PVYATLKIRIYFYDSVTN 170
Cdd:pfam00844 227 SGASTTKIRVYFKLSYNG 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 ...
 1-170 6.34e-77

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: 229.50  E-value: 6.34e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992    1 GKVMCVSDVTRGTGLTHRVGKRFCVKSVYVLGKIWMDENIKTKNHTNSVMLFLVRDRRP-VDKPQDFGEVFNMFDNEPST 79
Cdd:pfam00844  67 GKVSLISDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPhGNTPGTFDELFGMYDNEPGT 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992   80 ATVKNVHRDRYQVLRKWYATVTGGQ------YASKEQALVKKFVR-VNNYVVYNQQEAGKYENHTENALMLYMACTHASN 152
Cdd:pfam00844 147 LTVKRDLRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPN 226

                         170
                  ....*....|....*...
gi 116563992  153 PVYATLKIRIYFYDSVTN 170
Cdd:pfam00844 227 SGASTTKIRVYFKLSYNG 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 ...
 1-170 6.34e-77

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: 229.50  E-value: 6.34e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992    1 GKVMCVSDVTRGTGLTHRVGKRFCVKSVYVLGKIWMDENIKTKNHTNSVMLFLVRDRRP-VDKPQDFGEVFNMFDNEPST 79
Cdd:pfam00844  67 GKVSLISDPTRGKGETNRVRKYIKLKSLYFKGTVWIDENIKDKNMTGVFSFWLVRDRRPhGNTPGTFDELFGMYDNEPGT 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 116563992   80 ATVKNVHRDRYQVLRKWYATVTGGQ------YASKEQALVKKFVR-VNNYVVYNQQEAGKYENHTENALMLYMACTHASN 152
Cdd:pfam00844 147 LTVKRDLRDRFVVKRKWKRVVSSEGdtnmvdFPGKNQLSVRRFFKwLGVKDEWNNSETGKYGNIKKNALLLYYCWMSAPN 226

                         170
                  ....*....|....*...
gi 116563992  153 PVYATLKIRIYFYDSVTN 170
Cdd:pfam00844 227 SGASTTKIRVYFKLSYNG 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH