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Conserved domains on  [gi|357469729|ref|XP_003605149|]
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F-box/LRR-repeat protein At3g58930 [Medicago truncatula]

Protein Classification

F-box protein( domain architecture ID 17779409)

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_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 19-54 9.36e-13

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: 60.00  E-value: 9.36e-13
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQHLWK 54
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
 
Name Accession Description Interval E-value
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 19-54 9.36e-13

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: 60.00  E-value: 9.36e-13
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQHLWK 54
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 19-59 7.58e-06

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: 41.76  E-value: 7.58e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 357469729   19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQHLWKHLHVL 59
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLW 41
FBOX smart00256
A Receptor for Ubiquitination Targets;
22-54 3.00e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 37.03  E-value: 3.00e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 357469729    22 LPDDVLNHILSYLPIKTTVATGRLSRQWQHLWK 54
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLID 33
 
Name Accession Description Interval E-value
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 19-54 9.36e-13

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: 60.00  E-value: 9.36e-13
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQHLWK 54
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 19-59 7.58e-06

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: 41.76  E-value: 7.58e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 357469729   19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQHLWKHLHVL 59
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLW 41
F-box_FBXL12 cd22123
F-box domain found in F-box/LRR-repeat protein 12 (FBXL12) and similar proteins; FBXL12, also ...
 19-54 1.83e-05

F-box domain found in F-box/LRR-repeat protein 12 (FBXL12) and similar proteins; FBXL12, also called F-box and leucine-rich repeat protein 12, or F-box protein FBL12, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It mediates the polyubiquitination and proteasomal degradation of calcium/calmodulin dependent protein kinase I (CAMK1) leading to disruption of cyclin D1/CDK4 complex assembly, which results in G1 cell cycle arrest in lung epithelia. It regulates T-cell differentiation in a cell-autonomous manner. 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: 438895  Cd Length: 42  Bit Score: 40.41  E-value: 1.83e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQ------HLWK 54
Cdd:cd22123    1 LDQLPENVLLEILSYLPVRDLLRISRVCKRWRrlvydkTLWR 42
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 19-57 1.65e-04

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 37.85  E-value: 1.65e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 357469729   19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQ------HLWKHLH 57
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLALVCRRWRelasddSLWRRLC 45
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 20-52 2.61e-04

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: 37.04  E-value: 2.61e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 357469729  20 SSLPDDVLNHILSYLPIKTTVATGRLSRQWQHL 52
Cdd:cd09917    1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWREL 33
FBOX smart00256
A Receptor for Ubiquitination Targets;
22-54 3.00e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 37.03  E-value: 3.00e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 357469729    22 LPDDVLNHILSYLPIKTTVATGRLSRQWQHLWK 54
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLID 33
F-box_SpPof1-like cd22147
F-box domain found in Schizosaccharomyces pombe Skp1-binding protein 1 (SpPof1) and similar ...
 19-56 7.61e-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: 36.14  E-value: 7.61e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRLSRQWQ------HLWKHL 56
Cdd:cd22147    2 LSALPVELSLKILSYLDAKSLCRAAQVSKKWRnladddELWKRM 45
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 20-52 2.37e-03

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: 34.74  E-value: 2.37e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 357469729  20 SSLPDDVLNHILSYLPIKTTVATGRLSRQWQHL 52
Cdd:cd22157    1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSL 33
F-box_FBXW5 cd22132
F-box domain found in F-box/WD repeat-containing protein 5 (FBXW5) and similar proteins; FBXW5, ...
 22-56 4.48e-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: 34.12  E-value: 4.48e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 357469729  22 LPDDVLNHILSYLPIKTTVATGRLSRQWQH------LWKHL 56
Cdd:cd22132    4 LPDSLLLHIFSYLSPKDLLAAGQVCKQWYRvsrdefLWKEL 44
F-box_FBXO17-like cd22169
F-box domain found in F-box only protein 17 (FBXO17), F-box only protein 27 (FBXO27) and ...
 19-52 8.03e-03

F-box domain found in F-box only protein 17 (FBXO17), F-box only protein 27 (FBXO27) and similar proteins; This subfamily includes FBXO17 and FBXO27. FBXO17 is also called FBX17, F-box only protein 26 (FBX26/FBXO26), or FBG4, while FBXO27 is also called FBX27, or F-box/G-domain protein 5. FBXO17 and FBXO27 are the substrate-recognition components of SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complexes. They can recognize and bind denatured glycoproteins, which are modified with complex-type oligosaccharides. FBXO17 also recognizes sulfated glycans but does not bind high-mannose glycoproteins. 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: 438940  Cd Length: 48  Bit Score: 33.55  E-value: 8.03e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 357469729  19 ISSLPDDVLNHILSYLPIKTTVATGRL-SRQWQHL 52
Cdd:cd22169    1 LSLLPEELLLLVLSHVPARTLVTRCRLvCRDWRDL 35
 
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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