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Conserved domains on  [gi|18411823|ref|NP_565169|]
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F-box family protein [Arabidopsis thaliana]

Protein Classification

F-box protein( domain architecture ID 1903342)

F-box protein functions as the substrate-recognition component of an SCF (Skp1-Cullin-F-box protein) ubiquitin-protein ligase that is involved in ubiquitin-dependent degradation

CATH:  1.20.1280.50
Gene Ontology:  GO:0019005|GO:0005515|GO:0006511
PubMed:  31898225|11178263
SCOP:  4001927

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
F-box_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
7-43 8.04e-06

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.


The actual alignment was detected with superfamily member cd22157:

Pssm-ID: 459239  Cd Length: 39  Bit Score: 42.06  E-value: 8.04e-06
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18411823   7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLATQSE 43
Cdd:cd22157   3 LPDDLVEEILSRL-PAKSLLRFRCVCKQWNSLISSPS 38
 
Name Accession Description Interval E-value
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
7-43 8.04e-06

F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) and similar proteins; AtFBW1, also called WD-40-associated F-box protein 1, is an F-box protein that contains four WD-40 repeats, which are separated from each other by a spacer region. Like other F-box proteins, AtFBW1 may be a component of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. This subfamily also contains many F-box only proteins that do not have any WD repeat. 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: 438928  Cd Length: 39  Bit Score: 42.06  E-value: 8.04e-06
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18411823   7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLATQSE 43
Cdd:cd22157   3 LPDDLVEEILSRL-PAKSLLRFRCVCKQWNSLISSPS 38
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
4-47 4.76e-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: 37.13  E-value: 4.76e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 18411823     4 FDAIPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLATQSESLLL 47
Cdd:pfam00646   1 LLDLPDDLLLEILSRL-DPKDLLRLSLVSKRWRSLVDSLKLWKK 43
FBOX smart00256
A Receptor for Ubiquitination Targets;
7-38 3.61e-03

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 34.72  E-value: 3.61e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 18411823      7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSL 38
Cdd:smart00256   1 LPDEILEEILSKL-DPKDLLRLRKVSRKWRSL 31
 
Name Accession Description Interval E-value
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
7-43 8.04e-06

F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) and similar proteins; AtFBW1, also called WD-40-associated F-box protein 1, is an F-box protein that contains four WD-40 repeats, which are separated from each other by a spacer region. Like other F-box proteins, AtFBW1 may be a component of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. This subfamily also contains many F-box only proteins that do not have any WD repeat. 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: 438928  Cd Length: 39  Bit Score: 42.06  E-value: 8.04e-06
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 18411823   7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLATQSE 43
Cdd:cd22157   3 LPDDLVEEILSRL-PAKSLLRFRCVCKQWNSLISSPS 38
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
4-47 4.76e-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: 37.13  E-value: 4.76e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 18411823     4 FDAIPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLATQSESLLL 47
Cdd:pfam00646   1 LLDLPDDLLLEILSRL-DPKDLLRLSLVSKRWRSLVDSLKLWKK 43
F-box-like pfam12937
F-box-like; This is an F-box-like family.
4-39 1.15e-03

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 36.31  E-value: 1.15e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 18411823     4 FDAIPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLA 39
Cdd:pfam12937   1 LSSLPDEILLQIFSYL-DPKDLLRLALVCRRWRELA 35
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
7-40 2.02e-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: 35.11  E-value: 2.02e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 18411823   7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSLAT 40
Cdd:cd09917   3 LPDEILLKILSYL-DPRDLLRLSLVCKRWRELAS 35
FBOX smart00256
A Receptor for Ubiquitination Targets;
7-38 3.61e-03

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 34.72  E-value: 3.61e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 18411823      7 IPDPVVIDILNRVgDVKTLIRCRSVSKRFNSL 38
Cdd:smart00256   1 LPDEILEEILSKL-DPKDLLRLRKVSRKWRSL 31
 
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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