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Conserved domains on  [gi|1063687839|ref|NP_001319128|]
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F-box/RNI-like/FBD-like domains-containing protein [Arabidopsis thaliana]

Protein Classification

F-box/FBD/LRR-repeat protein( domain architecture ID 17779682)

F-box/FBD/LRR-repeat protein may be a component of an SCF (Skp1-Cullin-F-box protein) ubiquitin-protein ligase that is involved in ubiquitin-dependent degradation

CATH:  1.20.1280.50|3.80.10.10
Gene Ontology:  GO:0006511|GO:0019005|GO:0005515|GO:0016567
PubMed:  31898225|11178263|11751054|14747988|10581972|7583641
SCOP:  4001927|4003523

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
351-422 9.13e-24

domain in FBox and BRCT domain containing plant proteins;


:

Pssm-ID: 214730  Cd Length: 72  Bit Score: 93.75  E-value: 9.13e-24
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063687839  351 ECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTISSKSTDINKKFEMLKELSLLFRRSPTCQIAFD 422
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-39 6.20e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


:

Pssm-ID: 438931  Cd Length: 36  Bit Score: 56.92  E-value: 6.20e-11
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFLWM 39
Cdd:cd22160     1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.00e-04

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


:

Pssm-ID: 336782  Cd Length: 26  Bit Score: 38.13  E-value: 2.00e-04
                          10        20
                  ....*....|....*....|....*.
gi 1063687839 154 SLKTLSLVSMKFPGDELIKMLLSNCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
351-422 9.13e-24

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 93.75  E-value: 9.13e-24
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063687839  351 ECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTISSKSTDINKKFEMLKELSLLFRRSPTCQIAFD 422
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-390 1.83e-16

FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it is repeated in two family members. Its precise function is unknown, but it is thought to be associated with nuclear processes. In fact, several family members are annotated as being similar to transcription factors.


Pssm-ID: 462458  Cd Length: 45  Bit Score: 72.75  E-value: 1.83e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1063687839 346 PSAVPECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTI 390
Cdd:pfam08387   1 PSSVPECLLSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-39 6.20e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438931  Cd Length: 36  Bit Score: 56.92  E-value: 6.20e-11
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFLWM 39
Cdd:cd22160     1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.00e-04

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


Pssm-ID: 336782  Cd Length: 26  Bit Score: 38.13  E-value: 2.00e-04
                          10        20
                  ....*....|....*....|....*.
gi 1063687839 154 SLKTLSLVSMKFPGDELIKMLLSNCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-46 4.26e-04

F-box domain; This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 425796  Cd Length: 43  Bit Score: 37.52  E-value: 4.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFLWMLVPKLIY 46
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
351-422 9.13e-24

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 93.75  E-value: 9.13e-24
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063687839  351 ECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTISSKSTDINKKFEMLKELSLLFRRSPTCQIAFD 422
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-390 1.83e-16

FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it is repeated in two family members. Its precise function is unknown, but it is thought to be associated with nuclear processes. In fact, several family members are annotated as being similar to transcription factors.


Pssm-ID: 462458  Cd Length: 45  Bit Score: 72.75  E-value: 1.83e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1063687839 346 PSAVPECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTI 390
Cdd:pfam08387   1 PSSVPECLLSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-39 6.20e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438931  Cd Length: 36  Bit Score: 56.92  E-value: 6.20e-11
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFLWM 39
Cdd:cd22160     1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.00e-04

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


Pssm-ID: 336782  Cd Length: 26  Bit Score: 38.13  E-value: 2.00e-04
                          10        20
                  ....*....|....*....|....*.
gi 1063687839 154 SLKTLSLVSMKFPGDELIKMLLSNCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-46 4.26e-04

F-box domain; This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 425796  Cd Length: 43  Bit Score: 37.52  E-value: 4.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFLWMLVPKLIY 46
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 4-37 4.47e-03

F-box-like; This is an F-box-like family.


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 34.77  E-value: 4.47e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063687839   4 LSQLPEALLVRILSLLSAKDVVSTMVLSKRWQFL 37
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLALVCRRWREL 34
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 5-37 6.11e-03

F-box domain superfamily; This short domain is commonly found at the N-terminus of various proteins, and typically co-occurs with one or more other conserved domains or motifs, such as leucine rich repeats, WD40 repeats, kelch, tub, spry, and others. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression. One of the best researched roles of F-box proteins is their participation in SCF (Skp1-Cul1-F-box protein), a multi-protein complex that functions as a ubiquitin E3 ligase, where the role of the F-box protein is to recruit target substrates. Gene families containing the F-box are found greatly expanded in narrow taxonomic lineages, such as flowering plants and nematodes. In this hierarchical classification, many of the subfamilies are named according to their domain architectures.


Pssm-ID: 438852  Cd Length: 35  Bit Score: 34.34  E-value: 6.11e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063687839   5 SQLPEALLVRILSLLSAKDVVSTMVLSKRWQFL 37
Cdd:cd09917     1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWREL 33
 
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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