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Conserved domains on  [gi|2097492610|ref|XP_043607847|]
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F-box protein GID2-like [Erigeron canadensis]

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 ...
 47-87 1.97e-13

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 cd22151:

Pssm-ID: 459239  Cd Length: 44  Bit Score: 61.95  E-value: 1.97e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2097492610  47 DENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22151     4 PDDLLQEIFKRLDPKSLARAACVCRRWRAAARSESLWENAC 44
 
Name Accession Description Interval E-value
F-box_AtGID2-like cd22151
F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, ...
 47-87 1.97e-13

F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, also called protein SLEEPY 1, is an essential component of the SCF-type E3 ligase complex, SCF(GID2), a complex that positively regulates the gibberellin signaling pathway. Upon gibberellin treatment, the SCF(GID2) complex mediates the ubiquitination and subsequent degradation of DELLA proteins (GAI, RGA and RGL2), some repressors of the gibberellin pathway, leading to the activation of the pathway. 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: 438922  Cd Length: 44  Bit Score: 61.95  E-value: 1.97e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2097492610  47 DENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22151     4 PDDLLQEIFKRLDPKSLARAACVCRRWRAAARSESLWENAC 44
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 31-87 2.38e-05

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 40.16  E-value: 2.38e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2097492610  31 SSLPEEddhvleevlsdenLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:pfam12937   2 SSLPDE-------------ILLQIFSYLDPKDLLRLALVCRRWRELASDDSLWRRLC 45
FBOX smart00256
A Receptor for Ubiquitination Targets;
48-83 4.29e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 36.65  E-value: 4.29e-04
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 2097492610   48 ENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLW 83
Cdd:smart00256   3 DEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFW 38
 
Name Accession Description Interval E-value
F-box_AtGID2-like cd22151
F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, ...
 47-87 1.97e-13

F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, also called protein SLEEPY 1, is an essential component of the SCF-type E3 ligase complex, SCF(GID2), a complex that positively regulates the gibberellin signaling pathway. Upon gibberellin treatment, the SCF(GID2) complex mediates the ubiquitination and subsequent degradation of DELLA proteins (GAI, RGA and RGL2), some repressors of the gibberellin pathway, leading to the activation of the pathway. 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: 438922  Cd Length: 44  Bit Score: 61.95  E-value: 1.97e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2097492610  47 DENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22151     4 PDDLLQEIFKRLDPKSLARAACVCRRWRAAARSESLWENAC 44
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 31-87 2.38e-05

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 40.16  E-value: 2.38e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2097492610  31 SSLPEEddhvleevlsdenLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:pfam12937   2 SSLPDE-------------ILLQIFSYLDPKDLLRLALVCRRWRELASDDSLWRRLC 45
F-box_FBXW12 cd22137
F-box domain found in F-box/WD repeat-containing protein 12 (FBXW12) and similar proteins; ...
 51-87 1.25e-04

F-box domain found in F-box/WD repeat-containing protein 12 (FBXW12) and similar proteins; FBXW12, also called F-box and WD-40 domain-containing protein 12, or F-box only protein 35 (FBXO35), is the substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex that mediates the ubiquitination and subsequent proteasomal degradation of target proteins. It functions as an epithelial growth suppressor. 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: 438909  Cd Length: 44  Bit Score: 38.13  E-value: 1.25e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2097492610  51 LFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22137     8 MLRIFSFLDAFSLLQAAQVNKQWNKVADSDYLWRNLC 44
F-box_FBXO8 cd22088
F-box domain found in F-box only protein 8 (FBXO8) and similar proteins; FBXO8, also called ...
 50-87 2.07e-04

F-box domain found in F-box only protein 8 (FBXO8) and similar proteins; FBXO8, also called FBX8, or F-box/SEC7 protein FBS, is a novel component of F-box proteins which contains an F-box domain and a putative Sec7 domain. FBX8 was originally identified as a Skp1-binding protein. It is involved in the ubiquitin-dependent proteolytic pathway. It acts as a metastasis suppressor that functions through mTOR signaling pathway. FBXO8 may promote the activation of ADP-ribosylation factor (ARF) through replacement of GDP with GTP. 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: 438860  Cd Length: 46  Bit Score: 37.69  E-value: 2.07e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2097492610  50 LLFEVLKHVDAKTLGTASCVskqWNVTAQDERLWEMIC 87
Cdd:cd22088    11 LSLTVLSHLNATDLCLASCV---WQDLANDELLWQGLC 45
FBOX smart00256
A Receptor for Ubiquitination Targets;
48-83 4.29e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 36.65  E-value: 4.29e-04
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 2097492610   48 ENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLW 83
Cdd:smart00256   3 DEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFW 38
F-box_SpPof1-like cd22147
F-box domain found in Schizosaccharomyces pombe Skp1-binding protein 1 (SpPof1) and similar ...
 50-87 4.34e-04

F-box domain found in Schizosaccharomyces pombe Skp1-binding protein 1 (SpPof1) and similar proteins; SpPof1, also called F-box/WD repeat-containing protein pof1, probably recognizes and binds to some phosphorylated proteins and promotes their ubiquitination and degradation. It is required for the inactivation of zip1 via ubiquitination. This subfamily also includes Saccharomyces cerevisiae methionine-requiring protein 30 (ScMET30, also called E3 ubiquitin ligase complex SCF(Met30) subunit MET30), Aspergillus niger sulfur controller B (AnSCONB, also called sulfur metabolite repression control protein B) and Neurospora crassa sulfur controller 2 (NcSCON2, also called sulfur metabolite repression control protein 2). ScMET30 acts as a transcriptional inhibitor that negatively regulates the expression of sulfur amino acid biosynthesis genes. It controls cell cycle function (being required for the G1/S transition and M-phase but not the S-phase), sulfur metabolism, and methionine biosynthesis as part of the E3 ubiquitin ligase complex SCF(Met30). AnSCONB and NcSCON2 are components of the SCF (sconB/scon-2) E3 ubiquitin ligase complexes involved in the regulation of sulfur metabolite repression, probably by mediating the inactivation or degradation of the metR transcription factor. 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: 438918  Cd Length: 46  Bit Score: 36.91  E-value: 4.34e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2097492610  50 LLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22147     9 LSLKILSYLDAKSLCRAAQVSKKWRNLADDDELWKRMC 46
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 48-84 7.67e-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: 35.98  E-value: 7.67e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2097492610  48 ENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWE 84
Cdd:pfam00646   6 DDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWK 42
F-box_FBXW5 cd22132
F-box domain found in F-box/WD repeat-containing protein 5 (FBXW5) and similar proteins; FBXW5, ...
 48-83 1.06e-03

F-box domain found in F-box/WD repeat-containing protein 5 (FBXW5) and similar proteins; FBXW5, also called F-box and WD-40 domain-containing protein 5, is the substrate-recognition component of both SCF (SKP1-CUL1-F-box protein) and DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes. 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: 438904 [Multi-domain]  Cd Length: 46  Bit Score: 35.67  E-value: 1.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2097492610  48 ENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLW 83
Cdd:cd22132     6 DSLLLHIFSYLSPKDLLAAGQVCKQWYRVSRDEFLW 41
F-box_FBXW8 cd22134
F-box domain found in F-box/WD repeat-containing protein 8 (FBXW8) and similar proteins; FBXW8, ...
 50-87 1.19e-03

F-box domain found in F-box/WD repeat-containing protein 8 (FBXW8) and similar proteins; FBXW8, also called F-box and WD-40 domain-containing protein 8, or F-box only protein 29 (FBXO29), is the substrate-recognition component of a Cul7-RING ubiquitin-protein ligase complex, which mediates the ubiquitination and subsequent proteasomal degradation of target proteins, such as GORASP1, IRS1, MAP4K1/HPK1. 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: 438906  Cd Length: 48  Bit Score: 35.43  E-value: 1.19e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2097492610  50 LLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22134    11 LALKIFQYLSVTDLCRCAQVSKSWKSLAEDELLWYRIC 48
F-box_FBXO15 cd22093
F-box domain found in F-box only protein 15 (FBXO15) and similar proteins; FBXO15, also called ...
 50-88 1.70e-03

F-box domain found in F-box only protein 15 (FBXO15) and similar proteins; FBXO15, also called FBX15, has a novel dual molecular function by controlling transcriptional repression and being part of SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligases, which is essential for stress response, gliotoxin production and virulence in the opportunistic human pathogen Aspergillus fumigatus. 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: 438865  Cd Length: 46  Bit Score: 35.30  E-value: 1.70e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 2097492610  50 LLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMICT 88
Cdd:cd22093     8 ILLKILSYLDASSLLCISCVNKLFYQLANDNALWRKLYS 46
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 45-78 2.26e-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: 2.26e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2097492610  45 LSDEnLLFEVLKHVDAKTLGTASCVSKQWNVTAQ 78
Cdd:cd09917     3 LPDE-ILLKILSYLDPRDLLRLSLVCKRWRELAS 35
F-box_FBXO41 cd22109
F-box domain found in F-box only protein 41 (FBXO41) and similar proteins; FBXO41, also called ...
 43-87 2.74e-03

F-box domain found in F-box only protein 41 (FBXO41) and similar proteins; FBXO41, also called FBX41, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It acts as a novel central nervous system (CNS)-specific F-box protein that localizes to the centrosome and the cytoplasm of neurons and promotes neuronal migration. 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: 438881  Cd Length: 47  Bit Score: 34.61  E-value: 2.74e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2097492610  43 EVLSDENLLFEVLKHVDAKTLGTASCVSKQWNVTAQDERLWEMIC 87
Cdd:cd22109     3 ESLRRRDALFCVFSYLDTKSLLRCAEVCREWRDVSRHPALWQRVC 47
 
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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