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Conserved domains on  [gi|238479803|ref|NP_188443|]
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RNI-like superfamily protein, partial [Arabidopsis thaliana]

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) ...
 33-67 5.73e-14

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: 65.77  E-value: 5.73e-14
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 238479803  33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVW 67
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
 
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) ...
 33-67 5.73e-14

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: 65.77  E-value: 5.73e-14
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 238479803  33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVW 67
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 33-69 1.27e-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: 39.45  E-value: 1.27e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 238479803   33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVWCD 69
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDS 37
FBOX smart00256
A Receptor for Ubiquitination Targets;
36-72 5.13e-03

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 34.72  E-value: 5.13e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 238479803    36 LPDVILQHILSFIPTKLAITTSLLSKRWRHVWCDTPS 72
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
 
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) ...
 33-67 5.73e-14

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: 65.77  E-value: 5.73e-14
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 238479803  33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVW 67
Cdd:cd22160    1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 33-69 1.27e-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: 39.45  E-value: 1.27e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 238479803   33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVWCD 69
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDS 37
FBOX smart00256
A Receptor for Ubiquitination Targets;
36-72 5.13e-03

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 34.72  E-value: 5.13e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 238479803    36 LPDVILQHILSFIPTKLAITTSLLSKRWRHVWCDTPS 72
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 34-66 7.58e-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: 33.96  E-value: 7.58e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 238479803  34 SSLPDVILQHILSFIPTKLAITTSLLSKRWRHV 66
Cdd:cd09917    1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWREL 33
F-box_AtTIR1-like cd22159
F-box domain found in Arabidopsis thaliana transport inhibitor response 1 protein (TIR1), ...
 33-66 7.67e-03

F-box domain found in Arabidopsis thaliana transport inhibitor response 1 protein (TIR1), coronatine-insensitive protein 1 (COI1) and similar proteins; TIR1, also called F-box/LRR-repeat protein 1 (FBL1), is part of an SCF (SKP1-cullin-F-box) protein ligase complex that promotes the ubiquitin-dependent proteolysis of a family of transcriptional regulators known as Aux/IAAs in an auxin-dependent manner. TIR1 is an auxin receptor that plays a potential role in plant hormone signaling. COI1, also called F-box/LRR-repeat protein 2 (FBL2), is the substrate-recruiting module of an SCF ubiquitin E3 ligase complex. It mediates jasmonate signalling by promoting hormone-dependent ubiquitylation and degradation of transcriptional repressor JASMONATE ZIM-domain (JAZ) family proteins. This subfamily also includes Arabidopsis thaliana EIN3-binding F-box protein 1 (EBF1). EBF1, also called F-box/LRR-repeat protein 6 (FBL6), is a component of the SCF(EBF1) E3 ubiquitin ligase complex, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (probably including EIN3 and EIL1). 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: 438930  Cd Length: 40  Bit Score: 34.36  E-value: 7.67e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 238479803  33 ISSLPDVILQHILSFIPT---KLAIttSLLSKRWRHV 66
Cdd:cd22159    1 IDLLPDEILELIFSYLSDpwdRNSC--SLVCKRWYRL 35
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 33-73 9.37e-03

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 34.00  E-value: 9.37e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 238479803   33 ISSLPDVILQHILSFIPTKLAITTSLLSKRWRHVwCDTPSL 73
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLALVCRRWREL-ASDDSL 40
 
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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