NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|193061636|ref|YP_001994909|]
View 

REn protein [TYLCAxV-Sic1-[IT:Sic2/2:04]]

Protein Classification

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_AL3 super family cl03201
Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. ...
 2-121 2.33e-33

Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. Geminiviruses contain three ORFs (designated AL1, AL2, and AL3) that overlap and are specified by multiple polycistronic mRNAs. The AL3 protein comprises approximately 0.05% of the cellular proteins and is present in the soluble and organelle fractions. AL3 may form oligomers. Immunoprecipitation of AL3 in a baculovirus expression system extracts expressing both AL1 pfam00799 and AL3 showed that the two proteins also complex with each other. The AL3 protein is involved in viral replication.


The actual alignment was detected with superfamily member pfam01407:

Pssm-ID: 279715  Cd Length: 119  Bit Score: 113.06  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193061636    2 DLRTGEYITALQATSGVYTFGITNPLYFKITKHNQNPFNNKYNTLifQIRFNHNLRKELGIHKCFLNFRIWTTLQSPTG- 80
Cdd:pfam01407   1 DSRTGELITYHQAQNSVYFDDVPNPLYFKLQNTETMATGNKIYTI--QIRFNHNLRKALGLHKCWLNLVVLSVSPRLSGe 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 193061636   81 HFLRVFKYQVCKYLNNLGVISLNNVIRAVDYVLYDVFEGTI 121
Cdd:pfam01407  79 ALLDRFKFHVMKYLNNLGVISINNVIRSINHVLYEEFIDLF 119
 
Name Accession Description Interval E-value
Gemini_AL3 pfam01407
Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. ...
 2-121 2.33e-33

Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. Geminiviruses contain three ORFs (designated AL1, AL2, and AL3) that overlap and are specified by multiple polycistronic mRNAs. The AL3 protein comprises approximately 0.05% of the cellular proteins and is present in the soluble and organelle fractions. AL3 may form oligomers. Immunoprecipitation of AL3 in a baculovirus expression system extracts expressing both AL1 pfam00799 and AL3 showed that the two proteins also complex with each other. The AL3 protein is involved in viral replication.


Pssm-ID: 279715  Cd Length: 119  Bit Score: 113.06  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193061636    2 DLRTGEYITALQATSGVYTFGITNPLYFKITKHNQNPFNNKYNTLifQIRFNHNLRKELGIHKCFLNFRIWTTLQSPTG- 80
Cdd:pfam01407   1 DSRTGELITYHQAQNSVYFDDVPNPLYFKLQNTETMATGNKIYTI--QIRFNHNLRKALGLHKCWLNLVVLSVSPRLSGe 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 193061636   81 HFLRVFKYQVCKYLNNLGVISLNNVIRAVDYVLYDVFEGTI 121
Cdd:pfam01407  79 ALLDRFKFHVMKYLNNLGVISINNVIRSINHVLYEEFIDLF 119
 
Name Accession Description Interval E-value
Gemini_AL3 pfam01407
Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. ...
 2-121 2.33e-33

Geminivirus AL3 protein; Geminiviruses are small, ssDNA-containing plant viruses. Geminiviruses contain three ORFs (designated AL1, AL2, and AL3) that overlap and are specified by multiple polycistronic mRNAs. The AL3 protein comprises approximately 0.05% of the cellular proteins and is present in the soluble and organelle fractions. AL3 may form oligomers. Immunoprecipitation of AL3 in a baculovirus expression system extracts expressing both AL1 pfam00799 and AL3 showed that the two proteins also complex with each other. The AL3 protein is involved in viral replication.


Pssm-ID: 279715  Cd Length: 119  Bit Score: 113.06  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193061636    2 DLRTGEYITALQATSGVYTFGITNPLYFKITKHNQNPFNNKYNTLifQIRFNHNLRKELGIHKCFLNFRIWTTLQSPTG- 80
Cdd:pfam01407   1 DSRTGELITYHQAQNSVYFDDVPNPLYFKLQNTETMATGNKIYTI--QIRFNHNLRKALGLHKCWLNLVVLSVSPRLSGe 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 193061636   81 HFLRVFKYQVCKYLNNLGVISLNNVIRAVDYVLYDVFEGTI 121
Cdd:pfam01407  79 ALLDRFKFHVMKYLNNLGVISINNVIRSINHVLYEEFIDLF 119
 
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